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Pull requests: broadinstitute/picard

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19 Open 1,119 Closed
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Pull requests list

Fix failures to allocate arrays with a very large Java heap size
#1986 opened Dec 17, 2024 by EthanNelson-Moore Loading…
5 tasks
Htsjdk Beta API first usage
#1981 opened Nov 22, 2024 by lbergelson Loading…
FLOW_* parameters must be accompanied by FLOW_MODE
#1980 opened Oct 13, 2024 by dror27 Loading…
@lbergelson
1
Refactor code around cloud support
#1975 opened Aug 9, 2024 by takutosato Loading…
5 tasks
19
Fold80 Bug Fix
#1972 opened Jul 31, 2024 by Patrick-Schlaeger-Broad • Draft
5 tasks
Add new argument to allow setting the google requester pays project
#1938 opened Jan 11, 2024 by lbergelson Loading…
1
@lbergelson
4
Test updating to java 21
#1931 opened Dec 19, 2023 by lbergelson • Draft
Cloud support for BuildBamIndex outputs.
#1925 opened Dec 4, 2023 by cmnbroad • Draft
2
@takutosato
1
DRAFT: VCFHeader refactoring
#1880 opened May 17, 2023 by cmnbroad • Draft
@droazen @cmnbroad
Check "CHART_OUTPUT != null" before generating a pdf
#1850 opened Jan 11, 2023 by yatzek Loading…
5 tasks
@droazen @lbergelson
3
Enables setting the google-project that will be charged for requests …
#1825 opened Aug 23, 2022 by yfarjoun Loading…
@lbergelson
11
Account for overlapping reads in Theoretical Sensitivity model
#1802 opened Apr 26, 2022 by fleharty Loading…
2 of 5 tasks
25
Make truncating the histogram optional in CollectInsertSizeMetrics
#1779 opened Feb 25, 2022 by takutosato Loading…
1 of 5 tasks
@takutosato
20
Consider "low" mapping quality reads to be unaligned for the purpose of Marking Duplicates.
#1460 opened Feb 2, 2020 by yfarjoun Loading…
5 tasks
1
@fleharty
8
Partial fix of coordinate casting to short in MarkDuplicates
#1442 opened Dec 13, 2019 by yfarjoun Loading…
5 tasks
11
Add reconstruct trios clps
#1435 opened Nov 28, 2019 by yfarjoun Loading…
@gbggrant @jessicaway @nikellepetrillo
Wrong filtering in Alignment metrics
#943 opened Sep 29, 2017 by Ksenomorfa Loading…
2 of 5 tasks
@gbggrant
16
Adapt CollectRrbsMetrics to SinglePassSamProgram
#940 opened Sep 28, 2017 by tcibinan Loading…
2 of 5 tasks
@yfarjoun
22
Fixing MergeBamAlignment creates invalid BAMs in the presence of secondary alignments
#932 opened Sep 19, 2017 by DenisVerkhoturov Loading…
2 of 5 tasks
@yfarjoun
34
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