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mskcc
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cwl-commandlinetools
Central location for CWL CommandLineTools
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Release/0.2.0
#53
allanbolipata
closed
5 years ago
0
Containerize and write CWL for Vardict
#52
rhshah
opened
5 years ago
1
Containerize and write CWL for Mutect
#51
rhshah
closed
4 years ago
1
Ij/marianas collapsing
#50
ionox0
closed
5 years ago
1
Adding CWL for gzip and sort
#49
rhshah
closed
5 years ago
0
Testing of all the CWL's on JUNO with toil-cwl-runner and singularity with LSF
#48
rhshah
closed
4 years ago
4
Refinement of all CWL's
#47
rhshah
closed
4 years ago
1
Alfred 0.1.17
#46
sivkovic
closed
5 years ago
0
Ss waltz dir correction
#45
shalabhsuman
closed
5 years ago
0
BEDtools merge v2.28.0_cv2
#44
shalabhsuman
closed
5 years ago
0
Bedtools Genomecov v2.28.0_cv2
#43
shalabhsuman
closed
5 years ago
0
bedtools merge
#42
rhshah
closed
5 years ago
3
bedtools genomecov
#41
rhshah
closed
5 years ago
1
SS Waltz PileupMetrices
#40
shalabhsuman
closed
5 years ago
0
Collapsing FirstPass CWL
#39
rhshah
closed
5 years ago
1
gzip and rename the collapsed fastq
#38
rhshah
closed
5 years ago
0
CWL for SORT command in collapsing
#37
rhshah
closed
5 years ago
0
Marianas Collapsing Second Pass CWL
#36
rhshah
closed
5 years ago
1
Waltz PileupMetrics make CWL.
#35
rhshah
closed
5 years ago
1
Containerize and write CWL for GATK 3.8 FindCoveredIntervals
#34
rhshah
closed
5 years ago
1
Ss gatk apply bqsr 4.1.2.0
#33
shalabhsuman
closed
5 years ago
1
Containerize and write CWL for GATK4 ApplyBQSR
#32
shalabhsuman
closed
5 years ago
2
Ss gatk base recalibrator 4.1.2.0
#31
shalabhsuman
closed
5 years ago
2
Containerize and write CWL for GATK 4 BaseQualityScoreRecalibrator
#30
rhshah
closed
5 years ago
2
Adding Markduplicates from picard 2.8.1
#29
rhshah
closed
5 years ago
0
Feature/picard 1.96
#28
rhshah
closed
5 years ago
0
Figuring out the NEW/updated parameters options for GATK4 ApplyBQSR (called PrintReads in GATK3)
#27
shalabhsuman
closed
5 years ago
0
Update Dockerfile
#26
rhshah
closed
5 years ago
0
Feature/abra2
#25
rhshah
closed
5 years ago
0
Fix trim galore
#24
ionox0
closed
5 years ago
0
GATK BaseRecalibrator 4.1.0.0
#23
sivkovic
closed
5 years ago
0
GATK ApplyBQSR 4.1.0.0 cwl
#22
sivkovic
closed
5 years ago
0
Feature/trim galore
#21
rhshah
closed
5 years ago
2
Ss/mksas refactor
#20
shalabhsuman
closed
5 years ago
3
Test Issue - Do docker image for Waltz tool
#19
shalabhsuman
closed
5 years ago
0
Containerize and write CWL for Waltz
#18
rhshah
closed
5 years ago
3
Containerize and write CWL for ABRA2
#17
rhshah
closed
5 years ago
0
Containerize custom Trim_Galore and Cutadapt and write CWL to run trim_galore
#16
rhshah
closed
5 years ago
0
Containerize and write CWL for GATK3 PrintReads
#15
rhshah
closed
5 years ago
7
Containerize and write CWL for GATK BaseQualityScoreRecalibrator
#14
rhshah
closed
5 years ago
3
Containerize and write CWL for Picard FixMateInformation
#13
rhshah
closed
5 years ago
0
Containerize and write CWL for Picard AddOrReplaceReadGroups
#12
rhshah
closed
5 years ago
0
Containerize and write CWL for Picard Mark Duplicates
#11
rhshah
closed
5 years ago
1
Containerize and write CWL for BWA MEM
#10
rhshah
closed
5 years ago
1
Release 0.1.0
#9
sivkovic
closed
5 years ago
0
Add Marianas 1.8.0 cwl
#8
ionox0
closed
5 years ago
2
Refactor cwls for bwa_sort
#7
sivkovic
closed
5 years ago
0
Containerize and write CWL for Marianas tool
#6
rhshah
closed
5 years ago
0
Marianas collapsing tool
#5
rhshah
closed
5 years ago
1
Docker file and hosting of Docker images
#4
rhshah
closed
5 years ago
1
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