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42 Open 140 Closed
42 Open 140 Closed
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Issues list

Get guacamole and friends building on newest batch of shared libraries infrastructure
#616 opened Dec 17, 2016 by hammer
@ryan-williams
1
Make indel realignment splice aware
#615 opened Dec 8, 2016 by hammer
1
--loci argument conflicts with TakeLociIterator
#611 opened Oct 26, 2016 by arahuja
2
throwed exception: ./scripts/guacamole: line 39 :exec: time: not found
#572 opened Sep 9, 2016 by car2008
27
Move to Spark 2.0
#566 opened Sep 1, 2016 by arahuja
2
Send relevant reference sequences to executors in more fine-grained ways than via a Broadcast infrastructure
#560 opened Aug 20, 2016 by ryan-williams
Allow receiving inputs from config files infrastructure
#553 opened Aug 15, 2016 by ryan-williams
@e5c
Remove progress helper, use Spark/log4j enhancement infrastructure
#551 opened Aug 15, 2016 by ryan-williams
@ryan-williams
Test running on Baylor "case 2" dataset validation
#548 opened Aug 15, 2016 by ryan-williams
@ryan-williams
2
Allow reference file to be loaded from HDFS or GS infrastructure
#512 opened Jul 28, 2016 by arahuja
@arahuja
Is there any way we can get the quali and filter information in the vcf file.
#470 opened May 2, 2016 by ankushreddy
consider supporting other output formats (csv, json, arrow?) in joint caller infrastructure
#447 opened Apr 22, 2016 by timodonnell
2
Ensure VCFs comply with the VCFv4.1 spec infrastructure
#442 opened Apr 13, 2016 by e5c
Codify style rules infrastructure
#439 opened Apr 12, 2016 by ryan-williams
7
Upgrade to Scala 2.11 infrastructure
#438 opened Apr 12, 2016 by ryan-williams
5
support writing Guacamole commands in separate projects infrastructure
#424 opened Apr 4, 2016 by timodonnell
2
Allow for reading in block gzip compressed VCF files. infrastructure
#402 opened Mar 26, 2016 by jstjohn
2
joint caller: use phasing information for better calls variant calling
#390 opened Feb 29, 2016 by timodonnell
joint caller: output phasing information variant calling
#389 opened Feb 29, 2016 by timodonnell
@timodonnell
1
Potential source of validated somatic mutations validation
#387 opened Feb 25, 2016 by hammer
2
joint caller: implement filters variant calling
#385 opened Feb 16, 2016 by timodonnell
@e5c
3
Null alleles error.
#379 opened Feb 3, 2016 by ankushreddy
4
when ever am passing a bam file as input am getting nothing out of this.
#375 opened Jan 27, 2016 by ankushreddy
12
Some more light on how to use the reference files.
#374 opened Jan 26, 2016 by ankushreddy
1
Ensure test BAM files are valid validation
#370 opened Jan 8, 2016 by hammer
2
ProTip! Exclude everything labeled bug with -label:bug.