[Blends-commit] [Git][blends-team/med][master] Update UDD

[Andreas Tille]

Andreas Tille pushed to branch master at Debian Blends Team / med


Commits:
15949cec by Andreas Tille at 2020-08-12T09:26:28+02:00
Update UDD

- - - - -


1 changed file:

- covid-19_doc/bio_covid-19_dependencies_result


Changes:

=====================================
covid-19_doc/bio_covid-19_dependencies_result
=====================================
@@ -1,227 +1,227 @@
-Last-Update: Wed, 29 Jul 2020 11:23:35 +0200
+Last-Update: Wed, 12 Aug 2020 09:23:06 +0200
 
-              package               |    architectures    | section  |                         releases                          |        conda         |     bio.tools      |              testsuite              
-------------------------------------+---------------------+----------+-----------------------------------------------------------+----------------------+--------------------+-------------------------------------
- nextflow                           |                     |          | https://salsa.debian.org/med-team/nextflow                |                      |                    | 
- capsule                            |                     |          |                                                           |                      |                    | 
- snakemake                          | all                 | main     | buster,bullseye,sid                                       | snakemake            | snakemake          | autopkgtest
- artic                              |                     |          |                                                           |                      |                    | 
- bcbio                              | all                 | main     | buster,bullseye,sid                                       | bcbio-nextgen        | bcbio-nextgen      | autopkgtest-pkg-python
- pigx-rnaseq                        |                     |          | https://salsa.debian.org/med-team/pigx-rnaseq             |                      |                    | 
- pigx-scrnaseq                      |                     |          |                                                           |                      |                    | 
- rosa                               |                     |          |                                                           |                      |                    | 
- scrnaseq                           |                     |          |                                                           |                      |                    | 
- shovill                            | amd64,arm64,ppc64el | main     | sid                                                       |                      |                    | 
- smartseq2                          |                     |          |                                                           |                      |                    | 
- viralcon                           |                     |          |                                                           |                      |                    | 
- nf-core                            |                     |          |                                                           |                      |                    | 
- abacas                             | all                 | main     | buster,bullseye,sid                                       |                      |                    | autopkgtest
- adamjava                           |                     |          |                                                           |                      |                    | 
- allelecount                        | amd64,arm64,ppc64el | main     | bullseye,sid                                              | cancerit-allelecount |                    | autopkgtest-pkg-perl
- python3-anndata                    |                     |          | new                                                       | anndata              |                    | 
- arvados                            |                     |          | https://salsa.debian.org/med-team/arvados                 |                      |                    | 
- r-other-ascat                      | all                 | main     | bullseye,sid                                              | ascat                |                    | 
- assembly-stats                     | amd64,arm64,ppc64el | main     | bullseye,sid                                              | assembly-stats       |                    | autopkgtest
- atropos                            | amd64,arm64,ppc64el | main     | bullseye,sid                                              | atropos              | atropos            | 
- augustus                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | augustus             | AUGUSTUS           | autopkgtest
- bamkit                             | all                 | main     | bullseye,sid                                              |                      |                    | 
- bandage                            | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | bandage              | bandage            | 
- libbbhash-dev                      | amd64,arm64,ppc64el | main     | bullseye,sid                                              |                      |                    | autopkgtest
- bcftools                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | bcftools             | bcftools           | autopkgtest
- bedtools                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | biotools             | bedtools           | autopkgtest
- biobambam2                         | amd64,arm64,ppc64el | main     | sid                                                       | biobambam            | biobambam          | autopkgtest
- python3-biopython                  | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       |                      | Biopython          | autopkgtest
- ncbi-blast+                        | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | blast                | blast              | autopkgtest
- bowtie2                            | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | bowtie2              | bowtie2            | autopkgtest
- busco                              | all                 | main     | bullseye,sid                                              | busco                |                    | 
- bustools                           | amd64,arm64,ppc64el | main     | bullseye,sid                                              | bustools             | BUStools           | 
- busybee                            |                     |          |                                                           |                      |                    | 
- bwa                                | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | bwa                  | BWA                | autopkgtest
- canu                               | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | canu                 | CANU               | 
- cat-bat                            | amd64,arm64,ppc64el | main     | bullseye,sid                                              | cat                  |                    | 
- centrifuge                         | amd64               | main     | buster,bullseye,sid                                       | centrifuge           | Centrifuge         | 
- changeo                            | all                 | main     | buster,bullseye,sid                                       | changeo              |                    | autopkgtest-pkg-python
- r-bioc-complexheatmap              |                     |          | https://salsa.debian.org/r-pkg-team/r-bioc-complexheatmap |                      |                    | 
- python3-cooler                     | all                 | main     | sid                                                       | cooler               |                    | autopkgtest
- cutadapt                           | all                 | main     | buster,bullseye,sid                                       | cutadapt             | cutadapt           | autopkgtest-pkg-python
- python3-cyvcf2                     | amd64,arm64         | main     | buster,bullseye,sid                                       | cyvcf2               |                    | autopkgtest-pkg-python
- dextractor                         | amd64,arm64,ppc64el | main     | bullseye,sid                                              |                      |                    | 
- diamond-aligner                    | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | diamond              | Diamond            | autopkgtest
- python3-deeptools                  | all                 | main     | bullseye,sid                                              | deeptools            | deeptools          | autopkgtest, autopkgtest-pkg-python
- r-bioc-degreport                   |                     |          |                                                           |                      |                    | 
- drop-seq-tools                     | all                 | main     | bullseye,sid                                              | dropseq_tools        |                    | autopkgtest
- r-bioc-edger                       | amd64,arm64,ppc64el | main     | bullseye,sid                                              | bioconductor-edger   | edger              | autopkgtest, autopkgtest-pkg-r
- fastp                              | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | fastp                |                    | autopkgtest
- fastqc                             | all                 | main     | buster,bullseye,sid                                       | fastqc               | FastQC             | autopkgtest
- fieldbioinformatics                |                     |          | https://salsa.debian.org/med-team/fieldbioinformatics     | arctic               |                    | 
- filtlong                           | amd64,arm64,ppc64el | main     | bullseye,sid                                              | filtlong             |                    | autopkgtest
- flappie                            |                     |          | https://salsa.debian.org/med-team/flappie                 |                      |                    | 
- flash                              | amd64,arm64,ppc64el | main     | bullseye,sid                                              | flash                | flash              | autopkgtest
- flye                               |                     |          | https://salsa.debian.org/med-team/flye                    | flye                 |                    | 
- freebayes                          | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | freebayes            | freebayes          | autopkgtest
- gatk                               |                     |          | https://salsa.debian.org/med-team/gatk                    | gatk4                |                    | 
- python3-geneimpacts                | all                 | main     | bullseye,sid                                              | geneimpacts          |                    | autopkgtest, autopkgtest-pkg-python
- gffread                            | amd64,arm64,ppc64el | main     | bullseye,sid                                              | gffread              | gffread            | autopkgtest
- python3-gffutils                   | all                 | main     | buster,bullseye,sid                                       | gffutils             | GFFutils           | autopkgtest
- gindex                             |                     |          | https://salsa.debian.org/med-team/gindex                  |                      |                    | 
- gjh-asl-json                       |                     |          |                                                           |                      |                    | 
- tigr-glimmer                       | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | glimmer              | glimmer            | autopkgtest
- grabix                             | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | grabix               |                    | autopkgtest
- graphmap2                          |                     |          | https://salsa.debian.org/med-team/graphmap2               | graphmap             |                    | 
- bio-guppy                          |                     |          |                                                           |                      |                    | 
- h5sparse                           |                     |          |                                                           |                      |                    | 
- hisat2                             | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | hisat2               | hisat2             | autopkgtest
- golang-github-biogo-hts-dev        | all                 | main     | buster,bullseye,sid                                       |                      |                    | autopkgtest-pkg-go
- r-bioc-htsfilter                   | all                 | main     | bullseye,sid                                              |                      |                    | autopkgtest, autopkgtest-pkg-r
- libhts-dev                         | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | htslib               |                    | autopkgtest
- python3-htseq                      | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | htseq                | htseq              | autopkgtest
- iitii                              | amd64               | main     | sid                                                       |                      |                    | autopkgtest
- python3-intake                     | amd64,arm64,ppc64el | main     | bullseye,sid                                              |                      |                    | 
- ivar                               | amd64,arm64         | main     | bullseye,sid                                              | ivar                 |                    | autopkgtest
- kallisto                           | amd64,arm64,ppc64el | main     | bullseye,sid                                              | kallisto             | kallisto           | autopkgtest
- kmc                                | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | kmc                  | KMC                | autopkgtest
- kraken2                            | amd64,arm64,ppc64el | main     | bullseye,sid                                              | kraken2              | kraken             | autopkgtest
- radiant                            | all                 | main     | buster,bullseye,sid                                       |                      | krona              | 
- lighter                            | amd64,arm64,ppc64el | main     | bullseye,sid                                              | lighter              |                    | 
- longshot                           |                     |          |                                                           |                      |                    | 
- r-cran-lsd                         | all                 | main     | bullseye,sid                                              | r-lsd                |                    | autopkgtest-pkg-r
- lumpy-sv                           | amd64,arm64,ppc64el | main     | sid                                                       | lumpy-sv             |                    | autopkgtest
- ncbi-magicblast                    |                     |          | https://salsa.debian.org/med-team/ncbi-magicblast         | magicblast           |                    | 
- manta                              |                     |          | https://salsa.debian.org/med-team/manta                   | manta                |                    | 
- python3-mappy                      | amd64,arm64         | main     | sid                                                       | minimap2             |                    | autopkgtest
- marginalign                        |                     |          |                                                           |                      |                    | 
- mash                               | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | mash                 |                    | autopkgtest
- masurca                            |                     |          |                                                           |                      |                    | 
- mcaller                            |                     |          |                                                           |                      |                    | 
- mecat2                             |                     |          |                                                           |                      |                    | 
- medaka                             |                     |          |                                                           |                      |                    | 
- megahit                            |                     |          | new                                                       | megahit              |                    | 
- megalodon                          |                     |          |                                                           |                      |                    | 
- metabat                            | amd64               | main     | bullseye,sid                                              | metabat2             |                    | autopkgtest
- metaspades                         |                     |          |                                                           |                      |                    | 
- minia                              | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | minia                | minia              | autopkgtest
- minimap2                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | minimap2             |                    | autopkgtest
- minitour                           |                     |          |                                                           |                      |                    | 
- libmmap-allocator-dev              | amd64,arm64         | main     | bullseye,sid                                              |                      |                    | autopkgtest
- mmmulti                            |                     |          |                                                           |                      |                    | 
- mosdepth                           |                     |          | https://salsa.debian.org/med-team/mosdepth                | mosdepth             |                    | 
- multiqc                            | all                 | main     | bullseye,sid                                              | multiqc              | multiqc            | 
- muscle                             | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | muscle               | MUSCLE             | autopkgtest
- nanofilt                           | amd64,arm64,ppc64el | main     | bullseye,sid                                              | nanofilt             |                    | autopkgtest
- nanolyse                           |                     |          | new                                                       | nanolyse             |                    | 
- python3-nanomath                   | all                 | main     | bullseye,sid                                              |                      |                    | autopkgtest
- nanoplot                           |                     |          | https://salsa.debian.org/med-team/nanoplot                | nanoplot             |                    | 
- nanopolish                         | amd64,arm64         | main     | buster,bullseye,sid                                       | nanopolish           | nanopolish         | autopkgtest
- nanook                             | all                 | main     | buster,bullseye,sid                                       |                      | NanoOK             | autopkgtest
- nanoraw                            |                     |          |                                                           |                      |                    | 
- nanosv                             | all                 | main     | bullseye,sid                                              | nanosv               |                    | 
- python3-ncls                       | amd64,arm64,ppc64el | main     | sid                                                       |                      |                    | autopkgtest-pkg-python
- ngmlr                              | amd64               | main     | bullseye,sid                                              | ngmlr                |                    | autopkgtest
- oncofuse                           |                     |          | https://salsa.debian.org/med-team/oncofuse                |                      |                    | 
- openstructure                      | amd64               | main     | bullseye,sid                                              |                      |                    | autopkgtest
- optitype                           |                     |          | https://salsa.debian.org/med-team/optitype                |                      |                    | 
- orca                               | all                 | main     | buster,bullseye,sid                                       |                      |                    | 
- python3-pairtools                  | amd64,arm64,ppc64el | main     | bullseye,sid                                              | pairtools            |                    | autopkgtest
- parallel-fastq-dump                | all                 | main     | sid                                                       | parallel-fastq-dump  |                    | 
- python3-pauvre                     | all                 | main     | bullseye,sid                                              |                      |                    | autopkgtest
- picard-tools                       | amd64               | main     | buster,bullseye,sid                                       | picard               | Picard_tools       | autopkgtest
- picopore                           | all                 | main     | sid                                                       | picopore             |                    | autopkgtest-pkg-python
- pinfish                            |                     |          |                                                           |                      |                    | 
- plasmidid                          |                     |          | new                                                       | plasmidid            |                    | 
- pilon                              | all                 | main     | buster,bullseye,sid                                       | pilon                | pilon              | autopkgtest
- pomoxis                            |                     |          |                                                           |                      |                    | 
- pore                               |                     |          |                                                           |                      |                    | 
- pore-c                             |                     |          |                                                           |                      |                    | 
- porechop                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | porechop             |                    | autopkgtest
- porejuicer                         |                     |          |                                                           |                      |                    | 
- poretools                          | all                 | main     | buster,bullseye,sid                                       | poretools            |                    | autopkgtest
- pplacer                            | amd64,arm64,ppc64el | main     | bullseye,sid                                              | pplacer              |                    | 
- presto                             | all                 | main     | bullseye,sid                                              | presto               | pRESTO             | autopkgtest-pkg-python
- prinseq-lite                       | all                 | main     | bullseye,sid                                              |                      |                    | autopkgtest
- prodigal                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | prodigal             |                    | autopkgtest
- prokka                             | all                 | main     | sid                                                       | prokka               | prokka             | autopkgtest
- pybedtools-bin                     | all                 | main     | buster,bullseye,sid                                       | pybedtools           | pybedtools         | autopkgtest-pkg-python
- python3-pychopper                  | all                 | main     | bullseye,sid                                              |                      |                    | autopkgtest-pkg-python
- pycoqc                             | all                 | main     | bullseye,sid                                              | pycoqc               |                    | 
- pyomo                              |                     |          |                                                           |                      |                    | 
- pyranges                           |                     |          |                                                           |                      |                    | 
- python3-pysam                      | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | pysam                | pysam              | autopkgtest, autopkgtest-pkg-python
- python3-vcf                        | amd64,arm64,ppc64el | main     | bullseye,sid                                              | pyvcf                |                    | autopkgtest, autopkgtest-pkg-python
- qcat                               | all                 | main     | bullseye,sid                                              | qcat                 |                    | autopkgtest
- qmean                              |                     |          |                                                           |                      |                    | 
- qsignature                         |                     |          |                                                           |                      |                    | 
- qualimap                           |                     |          | https://salsa.debian.org/med-team/qualimap                | qualimap             |                    | 
- quast                              |                     |          | https://salsa.debian.org/med-team/quast                   | quast                |                    | 
- r-cran-alakazam                    | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       |                      |                    | autopkgtest-pkg-r
- r-cran-shazam                      | all                 | main     | buster,bullseye,sid                                       | r-shazam             |                    | autopkgtest-pkg-r
- r-cran-tigger                      | all                 | main     | buster,bullseye,sid                                       | r-tigger             |                    | autopkgtest-pkg-r
- readucks                           | all                 | main     | bullseye,sid                                              |                      |                    | autopkgtest
- r-bioc-rsamtools                   | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       |                      |                    | autopkgtest, autopkgtest-pkg-r
- sailfish                           |                     |          | https://salsa.debian.org/med-team/sailfish                |                      |                    | 
- salmon                             | amd64               | main     | buster,bullseye,sid                                       | salmon               | salmon             | 
- sambamba                           | amd64,arm64         | main     | bullseye,sid                                              | sambamba             | Sambamba           | 
- samblaster                         | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | samblaster           | SAMBLASTER         | 
- samclip                            | all                 | main     | bullseye,sid                                              | samclip              |                    | autopkgtest
- samtools                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | samtools             | samtools           | autopkgtest
- scrappie                           |                     |          | https://salsa.debian.org/med-team/scrappie                | scrappie             |                    | 
- scribl                             |                     |          |                                                           |                      |                    | 
- sepp                               |                     |          | https://salsa.debian.org/med-team/sepp                    | sepp                 |                    | 
- python3-seqcluster                 |                     |          | https://salsa.debian.org/med-team/python-seqcluster       |                      |                    | 
- seqlib                             |                     |          |                                                           |                      |                    | 
- seqkit                             |                     |          |                                                           |                      |                    | 
- seqtk                              | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | seqtk                | seqtk              | autopkgtest
- seqwish                            |                     |          | https://salsa.debian.org/med-team/seqwish                 | seqwish              |                    | 
- signalalign                        |                     |          | https://salsa.debian.org/med-team/signalalign             |                      |                    | 
- shasta                             |                     |          |                                                           |                      |                    | 
- skesa                              | amd64               | main     | bullseye,sid                                              | skesa                |                    | 
- sniffles                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | sniffles             | sniffles           | autopkgtest
- snpeff                             |                     |          | https://salsa.debian.org/med-team/snpeff                  | snpeff               |                    | 
- snpsift                            |                     |          | https://salsa.debian.org/med-team/snpeff                  | snpeff               |                    | 
- spades                             | amd64               | main     | buster,bullseye,sid                                       | spades               | Spades             | autopkgtest
- spoa                               | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | spoa                 |                    | autopkgtest
- sra-toolkit                        | amd64               | main     | buster,bullseye,sid                                       | sra-tools            | sra-tools          | autopkgtest
- rna-star                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | star                 | star               | autopkgtest
- streamformatics                    |                     |          |                                                           |                      |                    | 
- strelka                            |                     |          | https://salsa.debian.org/med-team/strelka                 | strelka              |                    | 
- python3-streamz                    | all                 | main     | bullseye,sid                                              |                      |                    | autopkgtest
- tabix                              | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | htslib               |                    | autopkgtest
- tiddit                             | amd64,arm64,ppc64el | main     | bullseye,sid                                              | tiddit               |                    | autopkgtest
- tombo                              | amd64,arm64         | main     | sid                                                       | ont-tombo            |                    | autopkgtest
- tophat-recondition                 | all                 | main     | bullseye,sid                                              |                      |                    | 
- trim-galore                        | all                 | main     | bullseye,sid                                              | trim-galore          |                    | autopkgtest
- trimmomatic                        | all                 | main     | buster,bullseye,sid                                       | trimmomatic          | Trimmomatic        | autopkgtest
- tulip                              |                     |          |                                                           |                      |                    | 
- umap-learn                         | all                 | main     | bullseye,sid                                              |                      |                    | autopkgtest
- unicycler                          | amd64               | main     | buster,bullseye,sid                                       | unicycler            | unicycler          | autopkgtest
- varscan                            | amd64               | non-free | buster,bullseye,sid                                       | varscan              | varscan            | 
- vcfanno                            |                     |          | https://salsa.debian.org/med-team/vcfanno                 | vcfanno              |                    | 
- golang-github-brentp-vcfgo-dev     | all                 | main     | bullseye,sid                                              |                      |                    | autopkgtest-pkg-go
- vcftools                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | vcftools             | vcftools           | autopkgtest
- velvet                             | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       | velvet               | velvet             | autopkgtest
- ensembl-vep                        |                     |          | https://salsa.debian.org/med-team/ensembl-vep             | ensembl-vep          |                    | 
- vg                                 | amd64               | main     | bullseye,sid                                              | vg                   |                    | autopkgtest
- vienna-rna                         | amd64               | non-free | sid                                                       |                      | vienna_rna_package | 
- vsearch                            | amd64,ppc64el       | main     | buster,bullseye,sid                                       | vsearch              | vsearch            | autopkgtest
- vt                                 | amd64,arm64,ppc64el | main     | bullseye,sid                                              | vt                   |                    | autopkgtest
- wham-align                         | amd64,arm64,ppc64el | main     | bullseye,sid                                              | wham                 | wham               | autopkgtest
- yanagiba                           | all                 | main     | bullseye,sid                                              |                      |                    | 
- yanosim                            | amd64,arm64,ppc64el | main     | sid                                                       |                      |                    | autopkgtest-pkg-python
- libargs-dev                        |                     |          | new                                                       |                      |                    | 
- libatomicqueue-dev                 |                     |          |                                                           |                      |                    | 
- libatomicbitvector-dev             | all                 | main     | bullseye,sid                                              |                      |                    | autopkgtest
- libconcurrentqueue-dev             |                     |          |                                                           |                      |                    | 
- tao-json                           |                     |          |                                                           |                      |                    | 
- python3-h5py                       | all                 | main     | buster,bullseye,sid                                       |                      |                    | autopkgtest
- python3-numpy                      | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       |                      |                    | autopkgtest
- python3-pandas                     | all                 | main     | buster,bullseye,sid                                       |                      |                    | autopkgtest
- python3-pyarrow                    |                     |          |                                                           |                      |                    | 
- python3-sklearn                    | all                 | main     | buster,bullseye,sid                                       |                      |                    | autopkgtest
- python3-toolz                      | all                 | main     | buster,bullseye,sid                                       |                      |                    | autopkgtest
- python3-tornado                    | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       |                      |                    | autopkgtest
- python3-tqdm                       | all                 | main     | buster,bullseye,sid                                       |                      |                    | 
- libxenium-dev                      | all                 | main     | sid                                                       |                      |                    | 
- xonsh                              | all                 | main     | buster,bullseye,sid                                       |                      |                    | autopkgtest
- golang-github-shenwei356-xopen-dev | all                 | main     | sid                                                       |                      |                    | autopkgtest-pkg-go
- python3-yaml                       | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                       |                      |                    | autopkgtest
+              package               |    architectures    | section  |                       releases                        |        conda         |     bio.tools      |              testsuite              
+------------------------------------+---------------------+----------+-------------------------------------------------------+----------------------+--------------------+-------------------------------------
+ nextflow                           |                     |          | https://salsa.debian.org/med-team/nextflow            |                      |                    | 
+ capsule                            |                     |          |                                                       |                      |                    | 
+ snakemake                          | all                 | main     | buster,bullseye,sid                                   | snakemake            | snakemake          | autopkgtest
+ artic                              |                     |          |                                                       |                      |                    | 
+ bcbio                              | all                 | main     | buster,bullseye,sid                                   | bcbio-nextgen        | bcbio-nextgen      | autopkgtest-pkg-python
+ pigx-rnaseq                        |                     |          | https://salsa.debian.org/med-team/pigx-rnaseq         |                      |                    | 
+ pigx-scrnaseq                      |                     |          |                                                       |                      |                    | 
+ rosa                               |                     |          |                                                       |                      |                    | 
+ scrnaseq                           |                     |          |                                                       |                      |                    | 
+ shovill                            | amd64,arm64,ppc64el | main     | sid                                                   |                      |                    | 
+ smartseq2                          |                     |          |                                                       |                      |                    | 
+ viralcon                           |                     |          |                                                       |                      |                    | 
+ nf-core                            |                     |          |                                                       |                      |                    | 
+ abacas                             | all                 | main     | buster,bullseye,sid                                   |                      |                    | autopkgtest
+ adamjava                           |                     |          |                                                       |                      |                    | 
+ allelecount                        | amd64,arm64,ppc64el | main     | bullseye,sid                                          | cancerit-allelecount |                    | autopkgtest-pkg-perl
+ python3-anndata                    |                     |          | new                                                   | anndata              |                    | 
+ arvados                            |                     |          | https://salsa.debian.org/med-team/arvados             |                      |                    | 
+ r-other-ascat                      | all                 | main     | bullseye,sid                                          | ascat                |                    | 
+ assembly-stats                     | amd64,arm64,ppc64el | main     | bullseye,sid                                          | assembly-stats       |                    | autopkgtest
+ atropos                            | amd64,arm64,ppc64el | main     | bullseye,sid                                          | atropos              | atropos            | 
+ augustus                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | augustus             | AUGUSTUS           | autopkgtest
+ bamkit                             | all                 | main     | bullseye,sid                                          |                      |                    | 
+ bandage                            | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | bandage              | bandage            | 
+ libbbhash-dev                      | amd64,arm64,ppc64el | main     | bullseye,sid                                          |                      |                    | autopkgtest
+ bcftools                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | bcftools             | bcftools           | autopkgtest
+ bedtools                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | biotools             | bedtools           | autopkgtest
+ biobambam2                         | amd64,arm64,ppc64el | main     | sid                                                   | biobambam            | biobambam          | autopkgtest
+ python3-biopython                  | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   |                      | Biopython          | autopkgtest
+ ncbi-blast+                        | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | blast                | blast              | autopkgtest
+ bowtie2                            | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | bowtie2              | bowtie2            | autopkgtest
+ busco                              | all                 | main     | bullseye,sid                                          | busco                |                    | 
+ bustools                           | amd64,arm64,ppc64el | main     | bullseye,sid                                          | bustools             | BUStools           | 
+ busybee                            |                     |          |                                                       |                      |                    | 
+ bwa                                | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | bwa                  | BWA                | autopkgtest
+ canu                               | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | canu                 | CANU               | 
+ cat-bat                            | amd64,arm64,ppc64el | main     | bullseye,sid                                          | cat                  |                    | 
+ centrifuge                         | amd64               | main     | buster,bullseye,sid                                   | centrifuge           | Centrifuge         | 
+ changeo                            | all                 | main     | buster,bullseye,sid                                   | changeo              |                    | autopkgtest-pkg-python
+ r-bioc-complexheatmap              | all                 | main     | bullseye,sid                                          |                      |                    | autopkgtest, autopkgtest-pkg-r
+ python3-cooler                     | all                 | main     | sid                                                   | cooler               |                    | autopkgtest
+ cutadapt                           | all                 | main     | buster,bullseye,sid                                   | cutadapt             | cutadapt           | autopkgtest-pkg-python
+ python3-cyvcf2                     | amd64,arm64         | main     | buster,bullseye,sid                                   | cyvcf2               |                    | autopkgtest-pkg-python
+ dextractor                         | amd64,arm64,ppc64el | main     | bullseye,sid                                          |                      |                    | 
+ diamond-aligner                    | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | diamond              | Diamond            | autopkgtest
+ python3-deeptools                  | all                 | main     | bullseye,sid                                          | deeptools            | deeptools          | autopkgtest, autopkgtest-pkg-python
+ r-bioc-degreport                   | all                 | main     | bullseye,sid                                          |                      |                    | autopkgtest, autopkgtest-pkg-r
+ drop-seq-tools                     | all                 | main     | sid                                                   | dropseq_tools        |                    | autopkgtest
+ r-bioc-edger                       | amd64,arm64,ppc64el | main     | bullseye,sid                                          | bioconductor-edger   | edger              | autopkgtest, autopkgtest-pkg-r
+ fastp                              | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | fastp                |                    | autopkgtest
+ fastqc                             | all                 | main     | buster,sid                                            | fastqc               | FastQC             | autopkgtest
+ fieldbioinformatics                |                     |          | https://salsa.debian.org/med-team/fieldbioinformatics | arctic               |                    | 
+ filtlong                           | amd64,arm64,ppc64el | main     | bullseye,sid                                          | filtlong             |                    | autopkgtest
+ flappie                            |                     |          | https://salsa.debian.org/med-team/flappie             |                      |                    | 
+ flash                              | amd64,arm64,ppc64el | main     | bullseye,sid                                          | flash                | flash              | autopkgtest
+ flye                               |                     |          | https://salsa.debian.org/med-team/flye                | flye                 |                    | 
+ freebayes                          | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | freebayes            | freebayes          | autopkgtest
+ gatk                               |                     |          | https://salsa.debian.org/med-team/gatk                | gatk4                |                    | 
+ python3-geneimpacts                | all                 | main     | bullseye,sid                                          | geneimpacts          |                    | autopkgtest, autopkgtest-pkg-python
+ gffread                            | amd64,arm64,ppc64el | main     | bullseye,sid                                          | gffread              | gffread            | autopkgtest
+ python3-gffutils                   | all                 | main     | buster,bullseye,sid                                   | gffutils             | GFFutils           | autopkgtest
+ gindex                             |                     |          | https://salsa.debian.org/med-team/gindex              |                      |                    | 
+ gjh-asl-json                       |                     |          |                                                       |                      |                    | 
+ tigr-glimmer                       | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | glimmer              | glimmer            | autopkgtest
+ grabix                             | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | grabix               |                    | autopkgtest
+ graphmap2                          |                     |          | https://salsa.debian.org/med-team/graphmap2           | graphmap             |                    | 
+ bio-guppy                          |                     |          |                                                       |                      |                    | 
+ h5sparse                           |                     |          |                                                       |                      |                    | 
+ hisat2                             | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | hisat2               | hisat2             | autopkgtest
+ golang-github-biogo-hts-dev        | all                 | main     | buster,bullseye,sid                                   |                      |                    | autopkgtest-pkg-go
+ r-bioc-htsfilter                   | all                 | main     | bullseye,sid                                          |                      |                    | autopkgtest, autopkgtest-pkg-r
+ libhts-dev                         | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | htslib               |                    | autopkgtest
+ python3-htseq                      | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | htseq                | htseq              | autopkgtest
+ iitii                              | amd64               | main     | sid                                                   |                      |                    | autopkgtest
+ python3-intake                     | amd64,arm64,ppc64el | main     | bullseye,sid                                          |                      |                    | 
+ ivar                               | amd64,arm64         | main     | bullseye,sid                                          | ivar                 |                    | autopkgtest
+ kallisto                           | amd64,arm64,ppc64el | main     | bullseye,sid                                          | kallisto             | kallisto           | autopkgtest
+ kmc                                | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | kmc                  | KMC                | autopkgtest
+ kraken2                            | amd64,arm64,ppc64el | main     | bullseye,sid                                          | kraken2              | kraken             | autopkgtest
+ radiant                            | all                 | main     | buster,bullseye,sid                                   |                      | krona              | 
+ lighter                            | amd64,arm64,ppc64el | main     | bullseye,sid                                          | lighter              |                    | 
+ longshot                           |                     |          |                                                       |                      |                    | 
+ r-cran-lsd                         | all                 | main     | bullseye,sid                                          | r-lsd                |                    | autopkgtest-pkg-r
+ lumpy-sv                           | amd64,arm64,ppc64el | main     | sid                                                   | lumpy-sv             |                    | autopkgtest
+ ncbi-magicblast                    |                     |          | https://salsa.debian.org/med-team/ncbi-magicblast     | magicblast           |                    | 
+ manta                              |                     |          | https://salsa.debian.org/med-team/manta               | manta                |                    | 
+ python3-mappy                      | amd64,arm64         | main     | sid                                                   | minimap2             |                    | autopkgtest
+ marginalign                        |                     |          |                                                       |                      |                    | 
+ mash                               | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | mash                 |                    | autopkgtest
+ masurca                            |                     |          |                                                       |                      |                    | 
+ mcaller                            |                     |          |                                                       |                      |                    | 
+ mecat2                             |                     |          |                                                       |                      |                    | 
+ medaka                             |                     |          |                                                       |                      |                    | 
+ megahit                            |                     |          | new                                                   | megahit              |                    | 
+ megalodon                          |                     |          |                                                       |                      |                    | 
+ metabat                            | amd64               | main     | bullseye,sid                                          | metabat2             |                    | autopkgtest
+ metaspades                         |                     |          |                                                       |                      |                    | 
+ minia                              | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | minia                | minia              | autopkgtest
+ minimap2                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | minimap2             |                    | autopkgtest
+ minitour                           |                     |          |                                                       |                      |                    | 
+ libmmap-allocator-dev              | amd64,arm64         | main     | bullseye,sid                                          |                      |                    | autopkgtest
+ mmmulti                            |                     |          |                                                       |                      |                    | 
+ mosdepth                           |                     |          | https://salsa.debian.org/med-team/mosdepth            | mosdepth             |                    | 
+ multiqc                            | all                 | main     | bullseye,sid                                          | multiqc              | multiqc            | 
+ muscle                             | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | muscle               | MUSCLE             | autopkgtest
+ nanofilt                           | amd64,arm64,ppc64el | main     | bullseye,sid                                          | nanofilt             |                    | autopkgtest
+ nanolyse                           |                     |          | new                                                   | nanolyse             |                    | 
+ python3-nanomath                   | all                 | main     | bullseye,sid                                          |                      |                    | autopkgtest
+ nanoplot                           |                     |          | https://salsa.debian.org/med-team/nanoplot            | nanoplot             |                    | 
+ nanopolish                         | amd64,arm64         | main     | buster,bullseye,sid                                   | nanopolish           | nanopolish         | autopkgtest
+ nanook                             | all                 | main     | buster,bullseye,sid                                   |                      | NanoOK             | autopkgtest
+ nanoraw                            |                     |          |                                                       |                      |                    | 
+ nanosv                             | all                 | main     | bullseye,sid                                          | nanosv               |                    | 
+ python3-ncls                       | amd64,arm64,ppc64el | main     | bullseye,sid                                          |                      |                    | autopkgtest, autopkgtest-pkg-python
+ ngmlr                              | amd64               | main     | bullseye,sid                                          | ngmlr                |                    | autopkgtest
+ oncofuse                           |                     |          | https://salsa.debian.org/med-team/oncofuse            |                      |                    | 
+ openstructure                      | amd64               | main     | bullseye,sid                                          |                      |                    | autopkgtest
+ optitype                           |                     |          | https://salsa.debian.org/med-team/optitype            |                      |                    | 
+ orca                               | all                 | main     | buster,bullseye,sid                                   |                      |                    | 
+ python3-pairtools                  | amd64,arm64,ppc64el | main     | bullseye,sid                                          | pairtools            |                    | autopkgtest
+ parallel-fastq-dump                | all                 | main     | sid                                                   | parallel-fastq-dump  |                    | 
+ python3-pauvre                     | all                 | main     | bullseye,sid                                          |                      |                    | autopkgtest
+ picard-tools                       | amd64               | main     | buster,sid                                            | picard               | Picard_tools       | autopkgtest
+ picopore                           | all                 | main     | sid                                                   | picopore             |                    | autopkgtest-pkg-python
+ pinfish                            |                     |          |                                                       |                      |                    | 
+ plasmidid                          |                     |          | new                                                   | plasmidid            |                    | 
+ pilon                              | all                 | main     | buster,sid                                            | pilon                | pilon              | autopkgtest
+ pomoxis                            |                     |          |                                                       |                      |                    | 
+ pore                               |                     |          |                                                       |                      |                    | 
+ pore-c                             |                     |          |                                                       |                      |                    | 
+ porechop                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | porechop             |                    | autopkgtest
+ porejuicer                         |                     |          |                                                       |                      |                    | 
+ poretools                          | all                 | main     | buster,bullseye,sid                                   | poretools            |                    | autopkgtest
+ pplacer                            | amd64,arm64,ppc64el | main     | bullseye,sid                                          | pplacer              |                    | 
+ presto                             | all                 | main     | bullseye,sid                                          | presto               | pRESTO             | autopkgtest-pkg-python
+ prinseq-lite                       | all                 | main     | bullseye,sid                                          |                      |                    | autopkgtest
+ prodigal                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | prodigal             |                    | autopkgtest
+ prokka                             | all                 | main     | sid                                                   | prokka               | prokka             | autopkgtest
+ pybedtools-bin                     | all                 | main     | buster,bullseye,sid                                   | pybedtools           | pybedtools         | autopkgtest-pkg-python
+ python3-pychopper                  | all                 | main     | bullseye,sid                                          |                      |                    | autopkgtest-pkg-python
+ pycoqc                             | all                 | main     | bullseye,sid                                          | pycoqc               |                    | 
+ pyomo                              |                     |          |                                                       |                      |                    | 
+ pyranges                           |                     |          |                                                       |                      |                    | 
+ python3-pysam                      | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | pysam                | pysam              | autopkgtest, autopkgtest-pkg-python
+ python3-vcf                        | amd64,arm64,ppc64el | main     | bullseye,sid                                          | pyvcf                |                    | autopkgtest, autopkgtest-pkg-python
+ qcat                               | all                 | main     | bullseye,sid                                          | qcat                 |                    | autopkgtest
+ qmean                              |                     |          |                                                       |                      |                    | 
+ qsignature                         |                     |          |                                                       |                      |                    | 
+ qualimap                           |                     |          | https://salsa.debian.org/med-team/qualimap            | qualimap             |                    | 
+ quast                              |                     |          | https://salsa.debian.org/med-team/quast               | quast                |                    | 
+ r-cran-alakazam                    | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   |                      |                    | autopkgtest-pkg-r
+ r-cran-shazam                      | all                 | main     | buster,bullseye,sid                                   | r-shazam             |                    | autopkgtest-pkg-r
+ r-cran-tigger                      | all                 | main     | buster,bullseye,sid                                   | r-tigger             |                    | autopkgtest-pkg-r
+ readucks                           | all                 | main     | bullseye,sid                                          |                      |                    | autopkgtest
+ r-bioc-rsamtools                   | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   |                      |                    | autopkgtest, autopkgtest-pkg-r
+ sailfish                           |                     |          | https://salsa.debian.org/med-team/sailfish            |                      |                    | 
+ salmon                             | amd64               | main     | buster,bullseye,sid                                   | salmon               | salmon             | 
+ sambamba                           | amd64,arm64         | main     | bullseye,sid                                          | sambamba             | Sambamba           | 
+ samblaster                         | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | samblaster           | SAMBLASTER         | 
+ samclip                            | all                 | main     | bullseye,sid                                          | samclip              |                    | autopkgtest
+ samtools                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | samtools             | samtools           | autopkgtest
+ scrappie                           | amd64               | main     | sid                                                   | scrappie             |                    | 
+ scribl                             |                     |          |                                                       |                      |                    | 
+ sepp                               |                     |          | https://salsa.debian.org/med-team/sepp                | sepp                 |                    | 
+ python3-seqcluster                 |                     |          | https://salsa.debian.org/med-team/python-seqcluster   |                      |                    | 
+ seqlib                             |                     |          |                                                       |                      |                    | 
+ seqkit                             |                     |          |                                                       |                      |                    | 
+ seqtk                              | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | seqtk                | seqtk              | autopkgtest
+ seqwish                            |                     |          | https://salsa.debian.org/med-team/seqwish             | seqwish              |                    | 
+ signalalign                        |                     |          | https://salsa.debian.org/med-team/signalalign         |                      |                    | 
+ shasta                             |                     |          |                                                       |                      |                    | 
+ skesa                              | amd64               | main     | bullseye,sid                                          | skesa                |                    | 
+ sniffles                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | sniffles             | sniffles           | autopkgtest
+ snpeff                             |                     |          | https://salsa.debian.org/med-team/snpeff              | snpeff               |                    | 
+ snpsift                            |                     |          | https://salsa.debian.org/med-team/snpeff              | snpeff               |                    | 
+ spades                             | amd64               | main     | buster,bullseye,sid                                   | spades               | Spades             | autopkgtest
+ spoa                               | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | spoa                 |                    | autopkgtest
+ sra-toolkit                        | amd64               | main     | buster,bullseye,sid                                   | sra-tools            | sra-tools          | autopkgtest
+ rna-star                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | star                 | star               | autopkgtest
+ streamformatics                    |                     |          |                                                       |                      |                    | 
+ strelka                            |                     |          | https://salsa.debian.org/med-team/strelka             | strelka              |                    | 
+ python3-streamz                    | all                 | main     | bullseye,sid                                          |                      |                    | autopkgtest
+ tabix                              | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | htslib               |                    | autopkgtest
+ tiddit                             | amd64,arm64,ppc64el | main     | bullseye,sid                                          | tiddit               |                    | autopkgtest
+ tombo                              | amd64,arm64         | main     | sid                                                   | ont-tombo            |                    | autopkgtest
+ tophat-recondition                 | all                 | main     | bullseye,sid                                          |                      |                    | 
+ trim-galore                        | all                 | main     | bullseye,sid                                          | trim-galore          |                    | autopkgtest
+ trimmomatic                        | all                 | main     | buster,bullseye,sid                                   | trimmomatic          | Trimmomatic        | autopkgtest
+ tulip                              |                     |          |                                                       |                      |                    | 
+ umap-learn                         | all                 | main     | bullseye,sid                                          |                      |                    | autopkgtest
+ unicycler                          | amd64               | main     | buster,sid                                            | unicycler            | unicycler          | autopkgtest
+ varscan                            | amd64               | non-free | buster,bullseye,sid                                   | varscan              | varscan            | 
+ vcfanno                            |                     |          | https://salsa.debian.org/med-team/vcfanno             | vcfanno              |                    | 
+ golang-github-brentp-vcfgo-dev     | all                 | main     | bullseye,sid                                          |                      |                    | autopkgtest-pkg-go
+ vcftools                           | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | vcftools             | vcftools           | autopkgtest
+ velvet                             | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   | velvet               | velvet             | autopkgtest
+ ensembl-vep                        |                     |          | https://salsa.debian.org/med-team/ensembl-vep         | ensembl-vep          |                    | 
+ vg                                 | amd64               | main     | bullseye,sid                                          | vg                   |                    | autopkgtest
+ vienna-rna                         | amd64               | non-free | sid                                                   |                      | vienna_rna_package | 
+ vsearch                            | amd64,ppc64el       | main     | buster,bullseye,sid                                   | vsearch              | vsearch            | autopkgtest
+ vt                                 | amd64,arm64,ppc64el | main     | bullseye,sid                                          | vt                   |                    | autopkgtest
+ wham-align                         | amd64,arm64,ppc64el | main     | bullseye,sid                                          | wham                 | wham               | autopkgtest
+ yanagiba                           | all                 | main     | bullseye,sid                                          |                      |                    | 
+ yanosim                            | amd64,arm64,ppc64el | main     | sid                                                   |                      |                    | autopkgtest-pkg-python
+ libargs-dev                        |                     |          | new                                                   |                      |                    | 
+ libatomicqueue-dev                 |                     |          |                                                       |                      |                    | 
+ libatomicbitvector-dev             | all                 | main     | bullseye,sid                                          |                      |                    | autopkgtest
+ libconcurrentqueue-dev             |                     |          |                                                       |                      |                    | 
+ tao-json                           |                     |          |                                                       |                      |                    | 
+ python3-h5py                       | all                 | main     | buster,bullseye,sid                                   |                      |                    | autopkgtest
+ python3-numpy                      | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   |                      |                    | autopkgtest
+ python3-pandas                     | all                 | main     | buster,bullseye,sid                                   |                      |                    | autopkgtest
+ python3-pyarrow                    |                     |          |                                                       |                      |                    | 
+ python3-sklearn                    | all                 | main     | buster,bullseye,sid                                   |                      |                    | autopkgtest
+ python3-toolz                      | all                 | main     | buster,bullseye,sid                                   |                      |                    | autopkgtest
+ python3-tornado                    | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   |                      |                    | autopkgtest
+ python3-tqdm                       | all                 | main     | buster,bullseye,sid                                   |                      |                    | 
+ libxenium-dev                      | all                 | main     | sid                                                   |                      |                    | 
+ xonsh                              | all                 | main     | buster,bullseye,sid                                   |                      |                    | autopkgtest
+ golang-github-shenwei356-xopen-dev | all                 | main     | sid                                                   |                      |                    | autopkgtest-pkg-go
+ python3-yaml                       | amd64,arm64,ppc64el | main     | buster,bullseye,sid                                   |                      |                    | autopkgtest
 (221 Zeilen)
 



View it on GitLab: https://salsa.debian.org/blends-team/med/-/commit/15949cec8f5d231026677750e380eaaf0efb1332

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View it on GitLab: https://salsa.debian.org/blends-team/med/-/commit/15949cec8f5d231026677750e380eaaf0efb1332
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