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mskcc
/
cmo
Command-line tools for data analysts at the CMO
GNU General Public License v2.0
7
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13
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Create stripepricingtable
#83
ztobin92
opened
1 year ago
0
cmo.util.normalize_vcf crashes on duplicates
#80
kpjonsson
closed
6 years ago
2
Can specify java version in cmo_index
#79
nikhil
closed
6 years ago
0
Index allows you to choose the version of picard
#78
nikhil
closed
6 years ago
0
New Picard and qc fix
#77
nikhil
closed
6 years ago
0
Fixed Jenkins testing
#76
nikhil
closed
6 years ago
3
abra bugfix
#75
lordzappo
closed
6 years ago
0
abra 2.12 lazy patch
#74
lordzappo
closed
7 years ago
0
Add ProcessLoopUMIFastq tool
#73
ionox0
closed
5 years ago
2
Add marianas tool
#72
ionox0
closed
7 years ago
1
Delly cmo wrapper
#71
nikhil
closed
7 years ago
1
1.9.1
#70
lordzappo
closed
7 years ago
0
1.9.0
#69
lordzappo
closed
7 years ago
0
1.9.0
#68
lordzappo
closed
7 years ago
0
Ij/bwa args fix
#67
ionox0
closed
7 years ago
3
cmoqcpdf return success no matter what
#66
lordzappo
closed
7 years ago
0
Fixed spelling mistake
#65
nikhil
closed
7 years ago
1
cmo qc pdf
#64
lordzappo
closed
7 years ago
0
Dev
#63
lordzappo
closed
7 years ago
0
__init__ . py less crappy
#62
lordzappo
closed
7 years ago
0
dangling /bin/bash commit
#61
lordzappo
closed
7 years ago
0
fix picard parser, add executable to subprocess.call, increment version
#60
lordzappo
closed
7 years ago
0
cmo_fillout now gets sample IDs from BAMs instead of MAF
#59
ckandoth
closed
7 years ago
2
Retain input MAF columns in portal fillout MAF
#58
ckandoth
closed
7 years ago
0
increment version
#57
lordzappo
closed
7 years ago
0
cmo_fillout now generates portal-friendly MAFs
#56
ckandoth
closed
7 years ago
0
Cmo installer
#55
lordzappo
closed
7 years ago
0
Abra2
#54
lordzappo
closed
7 years ago
1
Cmoabra
#53
lordzappo
closed
7 years ago
2
Cmoabra
#52
lordzappo
closed
7 years ago
0
Cmoabra
#51
lordzappo
closed
7 years ago
0
Cmoabra
#50
lordzappo
closed
7 years ago
0
Cmoabra
#49
lordzappo
closed
7 years ago
0
Abra2 support
#48
lordzappo
closed
7 years ago
0
Fof installation....
#47
lordzappo
closed
7 years ago
0
Fof
#46
lordzappo
closed
7 years ago
0
Facets no fail
#45
lordzappo
closed
7 years ago
1
Cmo qcpdf
#44
lordzappo
closed
7 years ago
1
use proper separator when renaming fastq
#43
lordzappo
closed
7 years ago
0
add sample option to cmo_split_reads
#42
lordzappo
closed
7 years ago
0
Add ppflag-fixer to cmo
#41
lordzappo
closed
7 years ago
0
Added 3 commands for testing and more R fixing
#40
nikhil
closed
7 years ago
0
REFERENCE_SEQUENCE I BANISH THEE
#39
lordzappo
closed
7 years ago
0
Test update
#38
lordzappo
closed
7 years ago
0
add 1.96 version to picard calls in test
#37
lordzappo
closed
7 years ago
0
cmo_bwa_mem returns incorrect exit code
#36
hisplan
closed
7 years ago
2
Multiple values for PROGRAM and R requirement handling
#35
nikhil
closed
7 years ago
0
Made R propagate into picard.py
#34
nikhil
closed
7 years ago
0
scratch scratch scratch
#33
lordzappo
closed
7 years ago
0
Minor update
#32
lordzappo
closed
7 years ago
0
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