[med-svn] [Git][med-team/drop-seq][upstream] New upstream version 3.0.2+dfsg

[Pierre Gruet (@pgt)]

Pierre Gruet pushed to branch upstream at Debian Med / drop-seq


Commits:
fc203848 by Pierre Gruet at 2024-09-29T21:45:09+02:00
New upstream version 3.0.2+dfsg
- - - - -


30 changed files:

- README.md
- + doc/Donor_Assignment_Computational_Cookbook.pdf
- dropseq/build.gradle.kts
- − gradle/wrapper/gradle-wrapper.jar
- − gradle/wrapper/gradle-wrapper.properties
- src/R/packages/DropSeq.dropulation/DESCRIPTION
- src/R/packages/DropSeq.dropulation/NAMESPACE
- src/R/packages/DropSeq.dropulation/R/DonorAssignmentStandardAnalysis.R
- src/R/packages/DropSeq.dropulation/README.md
- src/R/packages/DropSeq.utilities/DESCRIPTION
- src/build/make_wrapper_scripts.sh
- src/build/public_clp_template.sh
- src/java/org/broadinstitute/dropseqrna/barnyard/DigitalExpression.java
- src/java/org/broadinstitute/dropseqrna/barnyard/GatherMolecularBarcodeDistributionByGene.java
- src/java/org/broadinstitute/dropseqrna/barnyard/MarkChimericReads.java
- src/java/org/broadinstitute/dropseqrna/barnyard/SelectCellsByNumTranscripts.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/FilterReadsByUMISupport.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/GatherDigitalAlleleCounts.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPUMIBasePileupIterator.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/UMICollection.java
- src/java/org/broadinstitute/dropseqrna/beadsynthesis/BiasedBarcodeCollectionFactory.java
- src/java/org/broadinstitute/dropseqrna/beadsynthesis/CorrectAndSplitScrnaReadPairs.java
- src/java/org/broadinstitute/dropseqrna/beadsynthesis/DetectBeadSynthesisErrors.java
- src/java/org/broadinstitute/dropseqrna/eqtl/CreateMetaCells.java
- src/java/org/broadinstitute/dropseqrna/utils/FilterBam.java
- src/java/org/broadinstitute/dropseqrna/utils/IteratorOfIterators.java
- src/java/org/broadinstitute/dropseqrna/utils/editdistance/DetectBeadSubstitutionErrors.java
- src/java/org/broadinstitute/dropseqrna/utils/editdistance/MapBarcodesByEditDistance.java
- + src/java/org/broadinstitute/dropseqrna/utils/readiterators/STARSoloChimericReadFilteringIterator.java
- src/java/org/broadinstitute/dropseqrna/utils/readiterators/UMIIterator.java


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/drop-seq/-/commit/fc203848b5b74713f45b9d52c7e40f902eb2488e

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View it on GitLab: https://salsa.debian.org/med-team/drop-seq/-/commit/fc203848b5b74713f45b9d52c7e40f902eb2488e
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