[Blends-commit] [Git][blends-team/med][master] Update UDD, add vcfanno
Andreas Tille
gitlab at salsa.debian.org
Sat Jul 18 13:07:18 BST 2020
Andreas Tille pushed to branch master at Debian Blends Team / med
Commits:
430fce13 by Andreas Tille at 2020-07-18T14:06:53+02:00
Update UDD, add vcfanno
- - - - -
2 changed files:
- covid-19_doc/bio_covid-19_dependencies_query
- covid-19_doc/bio_covid-19_dependencies_result
Changes:
=====================================
covid-19_doc/bio_covid-19_dependencies_query
=====================================
@@ -256,6 +256,8 @@ INSERT INTO covid19_packages VALUES
(DEFAULT,'umap-learn'),
(DEFAULT,'unicycler'),
(DEFAULT,'varscan'),
+(DEFAULT,'vcfanno'),
+(DEFAULT,'golang-github-brentp-vcfgo-dev'),
(DEFAULT,'vcftools'),
(DEFAULT,'velvet'),
(DEFAULT,'ensembl-vep'),
=====================================
covid-19_doc/bio_covid-19_dependencies_result
=====================================
@@ -1,216 +1,218 @@
-Last-Update: Fri, 17 Jul 2020 08:59:12 +0200
+Last-Update: Sat, 18 Jul 2020 14:01:13 +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 | sid | ascat | | autopkgtest-pkg-r
- 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 | | | new | cooler | |
- 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 | main | 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 | |
- 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 | | |
- 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 | 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 | main | sid | lighter | |
- 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 | 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 | | | new | | |
- 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 | 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 | 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
- pyarrow | | | | | |
- 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 | 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 | |
- 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 | sid | | | autopkgtest
- tabix | amd64,arm64,ppc64el | main | buster,bullseye,sid | htslib | | autopkgtest
- tabix | amd64,arm64,ppc64el | main | buster,bullseye,sid | htslib | |
- 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 | sid | | | autopkgtest
- unicycler | amd64 | main | buster,bullseye,sid | unicycler | unicycler | autopkgtest
- varscan | amd64 | non-free | buster,bullseye,sid | varscan | varscan |
- 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 | 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-numpy | amd64,arm64,ppc64el | main | buster,bullseye,sid | | | autopkgtest
- python3-pandas | all | main | buster,bullseye,sid | | | autopkgtest
- python3-toolz | all | main | buster,bullseye,sid | | | autopkgtest
- python3-tornado | amd64,arm64,ppc64el | main | buster,bullseye,sid | | | autopkgtest
-(210 Zeilen)
+ 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 | sid | ascat | | autopkgtest-pkg-r
+ 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 | main | 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 | |
+ 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 | | |
+ 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 | 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 | main | sid | lighter | |
+ 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 | | | new | | |
+ 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 | 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
+ pyarrow | | | | | |
+ 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 | |
+ 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 | sid | | | autopkgtest
+ tabix | amd64,arm64,ppc64el | main | buster,bullseye,sid | htslib | |
+ 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 | 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-numpy | amd64,arm64,ppc64el | main | buster,bullseye,sid | | | autopkgtest
+ python3-pandas | all | main | buster,bullseye,sid | | | autopkgtest
+ python3-toolz | all | main | buster,bullseye,sid | | | autopkgtest
+ python3-tornado | amd64,arm64,ppc64el | main | buster,bullseye,sid | | | autopkgtest
+(212 Zeilen)
View it on GitLab: https://salsa.debian.org/blends-team/med/-/commit/430fce13f29c735870381a18dc0df4cf97b828d5
--
View it on GitLab: https://salsa.debian.org/blends-team/med/-/commit/430fce13f29c735870381a18dc0df4cf97b828d5
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