[med-svn] [Git][med-team/drop-seq][upstream] New upstream version 2.4.1+dfsg

[Andreas Tille (@tille)]

Andreas Tille pushed to branch upstream at Debian Med / drop-seq


Commits:
763ed8c0 by Andreas Tille at 2021-10-12T09:38:35+02:00
New upstream version 2.4.1+dfsg
- - - - -


30 changed files:

- build.xml
- public.iml
- src/ant/defs.xml
- src/java/org/broadinstitute/dropseqrna/annotation/EnhanceGTFRecords.java
- src/java/org/broadinstitute/dropseqrna/annotation/GTFReader.java
- src/java/org/broadinstitute/dropseqrna/annotation/GeneFromGTFBuilder.java
- src/java/org/broadinstitute/dropseqrna/annotation/ValidateReference.java
- src/java/org/broadinstitute/dropseqrna/barnyard/BarcodeListRetrieval.java
- src/java/org/broadinstitute/dropseqrna/barnyard/DGECommandLineBase.java
- src/java/org/broadinstitute/dropseqrna/barnyard/DigitalExpression.java
- src/java/org/broadinstitute/dropseqrna/barnyard/GatherMolecularBarcodeDistributionByGene.java
- src/java/org/broadinstitute/dropseqrna/barnyard/SelectCellsByNumTranscripts.java
- src/java/org/broadinstitute/dropseqrna/barnyard/SingleCellRnaSeqMetricsCollector.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/DigitalAlleleCounts.java
- + src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/DigitalAlleleCountsBestGeneIterator.java
- + src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/DigitalAlleleCountsGeneIteratorI.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/DigitalAlleleCountsIterator.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtils.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/MultiCellDigitalAlleleCounts.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/MultiCellDigitalAlleleCountsIterator.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPBasePileUp.java
- + src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPInfoCollection.java
- + src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPIntervalRecordI.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPUMIBasePileup.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPUMIBasePileupIterator.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPUMICellReadIteratorWrapper.java
- src/java/org/broadinstitute/dropseqrna/beadsynthesis/DetectBeadSynthesisErrors.java
- src/java/org/broadinstitute/dropseqrna/censusseq/CensusSeq.java
- src/java/org/broadinstitute/dropseqrna/censusseq/CsiAnalysis.java
- src/java/org/broadinstitute/dropseqrna/censusseq/CsiMetrics.java


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/drop-seq/-/commit/763ed8c0f4837f541a449cc06c564738b22b0225

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View it on GitLab: https://salsa.debian.org/med-team/drop-seq/-/commit/763ed8c0f4837f541a449cc06c564738b22b0225
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