Issues
- 1
- 0
Try to identify pindel output fields containing info related to Read Depth (mutated allele) and Reference Depth?
#109 opened by ipstone - 1
Check for complex indel events
#106 opened by ThomasSClarke - 6
Error on BAS file generation with bam_stats
#101 opened by imendes93 - 2
generated files are corrupt error
#100 opened by imendes93 - 0
speed up flagging with ItervalTree
#78 opened by keiranmraine - 8
- 3
- 6
- 1
Test under internal large CI system
#86 opened by keiranmraine - 1
Checking for corrupt intermediates
#79 opened by keiranmraine - 1
- 0
- 0
- 0
I/O hardening - fill in stub function
#82 opened by keiranmraine - 0
I/O hardening - test cases
#81 opened by keiranmraine - 0
I/O hardening - stub function
#80 opened by keiranmraine - 2
Pindel panel of normals
#77 opened by DominikGlodzik - 0
pindel_merge_vcf_bam.pl - output threads
#76 opened by keiranmraine - 1
- 0
germline.bed - sort, compress, index
#71 opened by keiranmraine - 4
- 0
Add precommit checks
#65 opened by keiranmraine - 1
using the docker container of cgpPINDEL
#64 opened by tanasa - 5
- 1
using the docker container of cgpPINDEL
#63 opened by tanasa - 0
- 0
Pre-release tag for fragment analysis
#56 opened by keiranmraine - 1
- 2
Compress intermediate sam files
#55 opened by keiranmraine - 0
- 1
Calling InDel with only tumor sample
#54 opened by tenglaowu - 1
VCF sorting
#53 opened by keiranmraine - 0
VCF flag order
#52 opened by keiranmraine - 0
VCF header - unstable ordering of contigs
#51 opened by keiranmraine - 1
lsof failed to start
#50 opened by jb-adams - 0
ifstream created with NULL value
#49 opened by ezzymn - 15
Problem in compiling cgpPindel
#46 opened by GKerdivel - 0
pindel_to_vcf - symlinks
#44 opened by keiranmraine - 0
- 1
- 0
- 0
input generation fails when readgroup id = 0
#39 opened by keiranmraine - 0
Ensure paths are absolute
#38 opened by keiranmraine - 0
- 0
Typos in VCF headers
#33 opened by keiranmraine - 0
Bamsort with no tmp space defined
#34 opened by keiranmraine - 1
- 0
Cleanup output location
#19 opened by keiranmraine - 0
input step tries to run with 0 threads
#17 opened by keiranmraine