Merge branch 'master' of git.biohpc.swmed.edu:BICF/Astrocyte/process_scripts (050170a5) · Commits · NGS CLIA Lab / process_scripts · GitLab

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NGS CLIA Lab
process_scripts
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050170a5

Commit 050170a5 authored 5 years ago by

Brandi Cantarel

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Merge branch 'master' of git.biohpc.swmed.edu:BICF/Astrocyte/process_scripts

parents f330243d e068e832

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LICENSE 21 additions, 0 deletions

LICENSE
alignment/bamqc.sh 20 additions, 8 deletions

alignment/bamqc.sh
alignment/dnaseqalign.sh 19 additions, 9 deletions

alignment/dnaseqalign.sh
alignment/filter_genefusions.pl 50 additions, 21 deletions

alignment/filter_genefusions.pl
alignment/markdups.sh 2 additions, 5 deletions

alignment/markdups.sh
alignment/rnaseqalign.sh 0 additions, 2 deletions

alignment/rnaseqalign.sh
alignment/starfusion.sh 2 additions, 2 deletions

alignment/starfusion.sh
genect_rnaseq/cBioPortal_documents.pl 25 additions, 16 deletions

genect_rnaseq/cBioPortal_documents.pl
genect_rnaseq/dea.R 5 additions, 3 deletions

genect_rnaseq/dea.R
variants/cnvkit.sh 13 additions, 18 deletions

variants/cnvkit.sh
variants/filter_cnvkit.pl 23 additions, 9 deletions

variants/filter_cnvkit.pl
variants/filter_pindel.pl 1 addition, 0 deletions

variants/filter_pindel.pl
variants/gatkrunner.sh 18 additions, 13 deletions

variants/gatkrunner.sh
variants/germline_vc.sh 31 additions, 27 deletions

variants/germline_vc.sh
variants/norm_annot.sh 1 addition, 1 deletion

variants/norm_annot.sh
variants/pindel.sh 4 additions, 3 deletions

variants/pindel.sh
variants/somatic_vc.sh 20 additions, 36 deletions

variants/somatic_vc.sh
variants/uni_norm_annot.sh 38 additions, 0 deletions

variants/uni_norm_annot.sh
variants/unionvcf.pl 50 additions, 39 deletions

variants/unionvcf.pl

with 343 additions and 212 deletions

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