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wustl-oncology
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analysis-wdls
Scalable genomic analysis pipelines, written in WDL
MIT License
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Minimum VAF cutoff hardcoded in the Fp Filter step
#165
evelyn-schmidt
closed
1 week ago
2
Add somalier analysis for the RNA samples analyzed as part of immuno pipeline
#164
malachig
opened
1 month ago
0
increase disk request for vep annotation step
#163
malachig
closed
1 month ago
0
Insufficient storage to complete VEP step for germline variant annotation
#162
malachig
closed
1 month ago
0
increase disk space needed calc for bqsr-gatherbams step
#161
malachig
closed
1 month ago
0
Out of disk error during gather bam step
#160
malachig
closed
1 month ago
3
Write regions file as VCF is being processed instead of saving in memory
#159
susannasiebert
opened
1 month ago
1
Upgrade to pVACtools 4.4.1 and update workflows.zip
#158
susannasiebert
closed
2 months ago
0
Upgrade to pVACtools 4.4.0 and update workflows.zip
#157
susannasiebert
closed
2 months ago
0
fix typo in naming of samples in vcf in strelka variant detection
#156
malachig
closed
2 months ago
0
A typo in somatic_exome_nonhuman results in the VCF tumor column being renamed to use the normal sample name
#155
malachig
closed
1 month ago
1
Troubleshoot failures during localization step
#154
malachig
opened
2 months ago
1
increase memory resources to accommodate BigMHC
#153
malachig
closed
2 months ago
0
Upgrade to pVACtools version 4.3.0
#152
susannasiebert
closed
3 months ago
0
Create a tool that aggregates and prioritizes/filters fusion neoantigens
#151
malachig
opened
3 months ago
1
add crai index files to the outputs
#150
malachig
closed
3 months ago
0
Upgrade to pVACtools version 4.2.1
#149
susannasiebert
closed
3 months ago
0
Change hisat2_align.wdl and update workflow.zip
#148
mhoang22
closed
2 months ago
0
Upgrade to pVACtools version 4.2.0
#147
susannasiebert
closed
5 months ago
0
Add HLA LOH analysis to immuno workflow
#146
malachig
opened
8 months ago
0
Upgrade to pVACtools version 4.1.0
#145
susannasiebert
closed
8 months ago
0
Upgrade to pVACtools version 4.0.8
#144
susannasiebert
closed
8 months ago
0
Upgrade to pVACtools version 4.0.7
#143
susannasiebert
closed
9 months ago
0
Detect variant
#142
sridhar0605
opened
11 months ago
0
adding somatic wgs to dockstore
#141
sridhar0605
opened
11 months ago
1
Giving pVACseq output files unique names
#140
evelyn-schmidt
opened
11 months ago
0
changing localization_optional to false in mutect tool
#139
evelyn-schmidt
closed
2 months ago
6
Upgrade to pVACtools version 4.0.6
#138
susannasiebert
closed
1 year ago
1
Produce a new variant report table customized to immuno.wdl
#137
malachig
opened
1 year ago
0
Variant Parameter Cleanup (from PR#110)
#136
tmooney
closed
1 year ago
1
Upgrade to version 5.1.0
#135
susannasiebert
closed
1 year ago
4
changed star fusion cpus to 24 and turned off preempting
#134
evelyn-schmidt
closed
1 year ago
1
moved the set -o lines under the ACCESS_TOKEN block
#133
evelyn-schmidt
closed
1 year ago
1
Upgrade to pVACtools version 4.0.5
#132
susannasiebert
closed
1 year ago
2
pvacseq/pvacfuse hangs and fails to complete
#131
rkageyama
opened
1 year ago
2
renaming qc metrics chart
#130
Layth17
closed
1 year ago
1
Upgrade to pVACtools version 4.0.3
#129
susannasiebert
closed
1 year ago
0
125 fix germline variant calling
#128
evelyn-schmidt
closed
1 year ago
2
Update to pVACtools 4.0.1 release candidate for testing
#127
susannasiebert
closed
1 year ago
2
Immuno workflow annotated VCF gets written as a .vcf file instead of .vcf.gz
#126
susannasiebert
closed
1 year ago
4
Fix germline variant calling inputs for the pvactool proximal variation analysis
#125
malachig
closed
1 year ago
2
Improve selection of variant annotation for the variants.tsv
#124
malachig
opened
1 year ago
1
Update to official 4.0.0 pVACtools release
#123
susannasiebert
closed
1 year ago
0
add MIT license to match CWL source for these pipelines
#122
malachig
closed
1 year ago
0
Increase space_needed_gb in mark_duplicates_and_sort (Issue #120)
#121
ksinghal28
closed
1 year ago
0
sambamba-sort error: not enough data in stream
#120
malachig
closed
1 month ago
1
Rename end bias plot
#119
malachig
closed
1 year ago
1
Add orcid for apaul7.
#118
tmooney
closed
1 year ago
0
Update to latest release candidate docker container
#117
susannasiebert
closed
1 year ago
3
Add dockstore yml
#116
tmooney
closed
1 year ago
0
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