broadinstitute/picard

Clear current search query, filters, and sorts

Discussion about MergableMetrics
#746 opened Feb 5, 2017 by yfarjoun
More communication about planned and released changes to Picard functionality docs
#866 opened Jul 12, 2017 by alecw
Add lots of tests for the CheckFingerprint functionality tests
#376 opened Jan 7, 2016 by eitanbanks
SortSam hold output file and I can't delete it when exception is thrown
#775 opened Mar 13, 2017 by Fizol
AlignmentSummaryMetrics collects very few metrics when not given the reference
#779 opened Mar 28, 2017 by yfarjoun
Validation errors missing from metric-definitions page docs
#485 opened Mar 17, 2016 by dekling
CrossCheckReadGroupFingerprints dies with an NPE if a @RG tag is not complete bug cleanup error handling
#383 opened Jan 11, 2016 by yfarjoun
Rev Htsjdk and fix the build error.
#815 opened May 16, 2017 by yfarjoun 0 of 2
MergeBamAlignment creates invalid BAMs in the presence of secondary alignments bug
#589 opened Jul 7, 2016 by tfenne
Push Picard image to dockerhub in release process
#767 opened Mar 6, 2017 by vdauwera
MergeSamFiles accept SO:UNKNOWN
#796 opened Apr 20, 2017 by MichelMoser
A formal request to share the human HAPLOTYPE_MAP resource
#837 opened Jun 15, 2017 by sooheelee
Missing tag support in AddOrReplaceReadGroups
#763 opened Feb 24, 2017 by Poshi
incorrect tests were removed from the deprecated CrossChekReadgroupFingerprint
#869 opened Jul 13, 2017 by yfarjoun
use Static file endings for ".vcf", ".bcf", ".vcf.gz"
#854 opened Jul 5, 2017 by yfarjoun
picard-2.10.2: Failed to apply plugin [id 'org.ajoberstar.grgit']
#872 opened Jul 15, 2017 by mmokrejs
picard SortVcf raises java.lang.NullPointerException when external dictionary is incompatible
#759 opened Feb 21, 2017 by mmokrejs
Add DUAL_INDEXED to the list of default adapter sequences feature
#411 opened Jan 22, 2016 by eitanbanks
Building v 2.8.3 on Amazon EC2 Linux "Build Failed"
#751 opened Feb 14, 2017 by achamess
Add tests to the CrosscheckReadGroupFingerprints functionality tests
#375 opened Jan 7, 2016 by eitanbanks
Picard MarkDuplicates lacks tests regarding the tagging of duplicates. tests
#513 opened Apr 14, 2016 by yfarjoun
Feature Request: SamToFastq option to write file of unpaired mates feature
#699 opened Dec 8, 2016 by IleaHeft
SetNmMdAndUqTags needs to compare the SAM file's dictionary to the reference's
#845 opened Jun 21, 2017 by ronlevine

1
Include OpenJDK in tests to be compatible with Docker
#813 opened May 11, 2017 by sooheelee 0 of 2

1
Running certain tests produces phantom "bai" files that bothers git bug Vanilla
#660 opened Sep 20, 2016 by SHuang-Broad

1

Previous 1 2 3 Next

ProTip! Type g i on any issue or pull request to go back to the issue listing page.