[med-svn] [Git][med-team/drop-seq][upstream] New upstream version 2.4.0+dfsg

[Steffen Möller]

Steffen Möller pushed to branch upstream at Debian Med / drop-seq


Commits:
aa4f6adc by Steffen Moeller at 2020-09-20T20:15:47+02:00
New upstream version 2.4.0+dfsg
- - - - -


30 changed files:

- README.md
- build.xml
- + doc/Census-seq_Computational_Protcools.pdf
- src/ant/defs.xml
- src/java/org/broadinstitute/dropseqrna/annotation/EnhanceGTFRecords.java
- src/java/org/broadinstitute/dropseqrna/annotation/GatherGeneGCLength.java
- src/java/org/broadinstitute/dropseqrna/barnyard/DigitalExpression.java
- src/java/org/broadinstitute/dropseqrna/barnyard/GatherMolecularBarcodeDistributionByGene.java
- + src/java/org/broadinstitute/dropseqrna/barnyard/RnaSeqMtMetrics.java
- src/java/org/broadinstitute/dropseqrna/barnyard/SelectCellsByNumTranscripts.java
- src/java/org/broadinstitute/dropseqrna/barnyard/SingleCellRnaSeqMetricsCollector.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtils.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPUMIBasePileupIterator.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPUMICellReadIteratorWrapper.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SummarizeUMIBaseQualities.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/DgeHeaderMerger.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/DgeIterator.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/UMICollection.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/tools/DGEMatrix.java
- src/java/org/broadinstitute/dropseqrna/beadsynthesis/BiasedBarcodeCollectionFactory.java
- src/java/org/broadinstitute/dropseqrna/beadsynthesis/DetectBeadSynthesisErrors.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/CensusSeq.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/CensusSeqUtils.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/CommonSNPsData.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/CsiAnalysis.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/CsiMetrics.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/GenotypeDataBitSetListBacked.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/GenotypeDataI.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/JointIteratorCounter.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/OptimizeGradientAdjustment.java


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/drop-seq/-/commit/aa4f6adcc3c4f8c1f24bb00743598819897c802e

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View it on GitLab: https://salsa.debian.org/med-team/drop-seq/-/commit/aa4f6adcc3c4f8c1f24bb00743598819897c802e
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