<!DOCTYPE html PUBLIC "-//W3C//DTD HTML 4.0 Transitional//EN" "http://www.w3.org/TR/REC-html40/loose.dtd">
<html lang="en">
<head>
<meta content="text/html; charset=US-ASCII" http-equiv="Content-Type">
<title>
GitLab
</title>
<style>img {
max-width: 100%; height: auto;
}
</style>
</head>
<body>
<div class="content">
<h3>
Steffen Möller pushed to branch upstream
at <a href="https://salsa.debian.org/med-team/drop-seq">Debian Med / drop-seq</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/drop-seq/-/commit/aa4f6adcc3c4f8c1f24bb00743598819897c802e">aa4f6adc</a></strong>
<div>
<span>by Steffen Moeller</span>
<i>at 2020-09-20T20:15:47+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 2.4.0+dfsg</pre>
</li>
</ul>
<h4>30 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
</a>
</li>
<li class="file-stats">
<a href="#bdc348bf75801c527f51cdeddc8edf027f7ef35a">
build.xml
</a>
</li>
<li class="file-stats">
<a href="#3bbc7aa11ffb5b5863fe97aaef4ba8d734bf884b">
<span class="new-file">
+
doc/Census-seq_Computational_Protcools.pdf
</span>
</a>
</li>
<li class="file-stats">
<a href="#e417d87785a703d5c8bb1cc5e82cddfae8efe265">
src/ant/defs.xml
</a>
</li>
<li class="file-stats">
<a href="#032778c8c38290444d9623154ed3953430fa3519">
src/java/org/broadinstitute/dropseqrna/annotation/EnhanceGTFRecords.java
</a>
</li>
<li class="file-stats">
<a href="#d944370ae2e28822d45ecbf14db2258019f68621">
src/java/org/broadinstitute/dropseqrna/annotation/GatherGeneGCLength.java
</a>
</li>
<li class="file-stats">
<a href="#2b9909c5b5a360e211167af9b686a599ea5d6681">
src/java/org/broadinstitute/dropseqrna/barnyard/DigitalExpression.java
</a>
</li>
<li class="file-stats">
<a href="#b7ea49725999e61f0bdf16c415245903969406ca">
src/java/org/broadinstitute/dropseqrna/barnyard/GatherMolecularBarcodeDistributionByGene.java
</a>
</li>
<li class="file-stats">
<a href="#f9ad3dddfb027d19082812386134334f994d4d01">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/barnyard/RnaSeqMtMetrics.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#fd3a5e40a45d2f4b41997710d2d546c6eb0197ef">
src/java/org/broadinstitute/dropseqrna/barnyard/SelectCellsByNumTranscripts.java
</a>
</li>
<li class="file-stats">
<a href="#0c6697ef52f14a2739123f0abddc573b0efce8bb">
src/java/org/broadinstitute/dropseqrna/barnyard/SingleCellRnaSeqMetricsCollector.java
</a>
</li>
<li class="file-stats">
<a href="#5eb1e45250b8c5b84727a387522f0f44ecc64cf6">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtils.java
</a>
</li>
<li class="file-stats">
<a href="#ddf94b485d7475537602705ff0dea2a8ea08cb35">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPUMIBasePileupIterator.java
</a>
</li>
<li class="file-stats">
<a href="#3396c79204dc2e2cc915320af5a1542ce653aba2">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPUMICellReadIteratorWrapper.java
</a>
</li>
<li class="file-stats">
<a href="#0cd17d7e82d9e86dcd498edd59f8d769b0ca425d">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SummarizeUMIBaseQualities.java
</a>
</li>
<li class="file-stats">
<a href="#86035691d88b70be760a4d4026c4f5cbdd46ec92">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/DgeHeaderMerger.java
</a>
</li>
<li class="file-stats">
<a href="#0b80e52e0c1bbea07297946da8dc7775a2d2f7d0">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/DgeIterator.java
</a>
</li>
<li class="file-stats">
<a href="#b33e0cc880dba359e2678a2d62011b00eaf2c4d8">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/UMICollection.java
</a>
</li>
<li class="file-stats">
<a href="#9b8b257233225b56cfd60843438de6541bdf0f45">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/tools/DGEMatrix.java
</a>
</li>
<li class="file-stats">
<a href="#87ec433d730cff385cb0b0b1da655e142836d56c">
src/java/org/broadinstitute/dropseqrna/beadsynthesis/BiasedBarcodeCollectionFactory.java
</a>
</li>
<li class="file-stats">
<a href="#845b0d7c549b3f9a1ba70abaa321e2a3e548eb33">
src/java/org/broadinstitute/dropseqrna/beadsynthesis/DetectBeadSynthesisErrors.java
</a>
</li>
<li class="file-stats">
<a href="#c1d64d06453d67b5a3a769eded322b152657e044">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/censusseq/CensusSeq.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#f6df8aeb62de4bb45e27608148a1a20db9afa6b1">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/censusseq/CensusSeqUtils.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#16960c3b6e4d28920139b647877e5ce49b752ac5">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/censusseq/CommonSNPsData.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#98780a1228bbe3f11a6e3cbac2abfac64c09c6cd">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/censusseq/CsiAnalysis.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#0d5efb8415038faa07e28357d176b4935c13e88e">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/censusseq/CsiMetrics.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#e6cf99a70dc4f4cdc13013939949728c3e27ffc3">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/censusseq/GenotypeDataBitSetListBacked.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#f233f19b9197c332b687a671e07a61a0b39a2aea">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/censusseq/GenotypeDataI.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#bdf0466e0d19d09afc88d762b73997d1f3daf20e">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/censusseq/JointIteratorCounter.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#47046d7f21c6b238073e7fd52c599350dad3b86f">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/censusseq/OptimizeGradientAdjustment.java
</span>
</a>
</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
<div class="footer" style="margin-top: 10px;">
<p style="font-size: small; color: #777;">
—
<br>
<a href="https://salsa.debian.org/med-team/drop-seq/-/commit/aa4f6adcc3c4f8c1f24bb00743598819897c802e">View it on GitLab</a>.
<br>
You're receiving this email because of your account on salsa.debian.org.
If you'd like to receive fewer emails, you can
adjust your notification settings.
<script type="application/ld+json">{"@context":"http://schema.org","@type":"EmailMessage","action":{"@type":"ViewAction","name":"View Commit","url":"https://salsa.debian.org/med-team/drop-seq/-/commit/aa4f6adcc3c4f8c1f24bb00743598819897c802e"}}</script>
</p>
</div>
</body>
</html>