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<div class="content">
<h3 style="margin-top: 20px; margin-bottom: 10px;">
Pierre Gruet pushed to branch upstream at <a href="https://salsa.debian.org/med-team/drop-seq">Debian Med / drop-seq</a>
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<h4 style="margin-top: 10px; margin-bottom: 10px;">
Commits:
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<ul>
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<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/drop-seq/-/commit/4f6bae3860dbc6794ebaba7dd37b7cb7515975c0">4f6bae38</a></strong>
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<span> by Pierre Gruet </span> <i> at 2023-01-22T09:10:13+01:00 </i>
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<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>New upstream version 2.5.2+dfsg</pre>
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<h4 style="margin-top: 10px; margin-bottom: 10px;">
28 changed files:
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<li class="file-stats">
<a href="#bdc348bf75801c527f51cdeddc8edf027f7ef35a">
build.xml
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<li class="file-stats">
<a href="#e417d87785a703d5c8bb1cc5e82cddfae8efe265">
src/ant/defs.xml
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<a href="#0b8424398c23d6763cd56cc5f99b93f32fc1c5a2">
src/java/org/broadinstitute/dropseqrna/annotation/CompareAnnotationFlags.java
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<li class="file-stats">
<a href="#7cd43219051491d33fa44caef43082eab268994a">
src/java/org/broadinstitute/dropseqrna/annotation/FunctionalDataProcessor.java
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<li class="file-stats">
<a href="#3fc29742029b59ebe687374cc84905308eef17b0">
src/java/org/broadinstitute/dropseqrna/barnyard/DGECommandLineBase.java
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<li class="file-stats">
<a href="#2b9909c5b5a360e211167af9b686a599ea5d6681">
src/java/org/broadinstitute/dropseqrna/barnyard/DigitalExpression.java
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<li class="file-stats">
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src/java/org/broadinstitute/dropseqrna/barnyard/DownsampleTranscriptsAndQuantiles.java
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<a href="#b7ea49725999e61f0bdf16c415245903969406ca">
src/java/org/broadinstitute/dropseqrna/barnyard/GatherMolecularBarcodeDistributionByGene.java
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<a href="#07431cd8d412f4410521404da12d1c330884a20f">
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src/java/org/broadinstitute/dropseqrna/barnyard/UMICollectionByCellParser.java
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src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/GatherDigitalAlleleCounts.java
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<a href="#5eb1e45250b8c5b84727a387522f0f44ecc64cf6">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtils.java
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<a href="#9e64c2ba6f7c42d523a96f90dc144a508aa53475">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/AssignCellsToSamples.java
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<a href="#beb59feba939c25200173ef01c65f9a27165fc7e">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/CellCollectionSampleLikelihoodCollection.java
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<a href="#cf5480c44d646871ad1317e1b8e5a4084b56709c">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/multisample/DetectDoublets.java
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<a href="#22cb09f05bfd315a064e9a9aac0b99fe79a1d2b1">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/multisample/SamplePairAssignmentForCell.java
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src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/FilterDge.java
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<a href="#b33e0cc880dba359e2678a2d62011b00eaf2c4d8">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/UMICollection.java
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<a href="#845b0d7c549b3f9a1ba70abaa321e2a3e548eb33">
src/java/org/broadinstitute/dropseqrna/beadsynthesis/DetectBeadSynthesisErrors.java
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<li class="file-stats">
<a href="#c1d64d06453d67b5a3a769eded322b152657e044">
src/java/org/broadinstitute/dropseqrna/censusseq/CensusSeq.java
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<a href="#16960c3b6e4d28920139b647877e5ce49b752ac5">
src/java/org/broadinstitute/dropseqrna/censusseq/CommonSNPsData.java
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<a href="#47046d7f21c6b238073e7fd52c599350dad3b86f">
src/java/org/broadinstitute/dropseqrna/censusseq/OptimizeGradientAdjustment.java
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<a href="#28f5523807e9aec997004a4d9b957e58f38dc508">
src/java/org/broadinstitute/dropseqrna/censusseq/OptimizeSampleRatiosCommonSNPs.java
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<a href="#d2f32c168725e8c7b8c0bb12b9f49301ce3eeea6">
src/java/org/broadinstitute/dropseqrna/censusseq/OptimizeSampleRatiosCommonSNPsResult.java
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<a href="#57f5a4fdfa26221adbb8d9a559b6e38390b9ed69">
src/java/org/broadinstitute/dropseqrna/censusseq/OptimizeSampleRatiosGradientFunction.java
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<li class="file-stats">
<a href="#0c9d9817e5000fc9b1c252247ce0feb9d3accd06">
src/java/org/broadinstitute/dropseqrna/censusseq/OptimizeSampleRatiosLikelihoodFunctionCommonSNPs.java
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src/java/org/broadinstitute/dropseqrna/eqtl/CreateMetaCells.java
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src/java/org/broadinstitute/dropseqrna/eqtl/DonorMergeStrategy.java
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src/java/org/broadinstitute/dropseqrna/eqtl/MetaCellMetrics.java
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<h5 style="margin-top: 10px; margin-bottom: 10px; font-size: 0.875rem;">
The diff was not included because it is too large.
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