Mercurial > repos > elixir-it > vinyl_optimizer

view comando_galaxy_optimizer @ 2:6e4eb4856874 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author elixir-it
date Wed, 22 Jul 2020 19:20:30 +0000
parents
children
line wrap: on
line source

ln -s /export/matteo_wrapper/optimizer/score_complete_alt.pl 2>/export/galaxy/database/files/000/dataset_586.dat && ln -s /export/matteo_wrapper/optimizer/wilcox.R 2>>/export/galaxy/database/files/000/dataset_586.dat &&     perl /export/matteo_wrapper/optimizer/optimizer.pl    -fileR /export/galaxy/database/files/000/dataset_576.dat -fileC /export/galaxy/database/files/000/dataset_577.dat     -leQTL /export/matteo_wrapper/optimizer/qfile     -keywords /export/matteo_wrapper/optimizer/kfile  -effects /export/matteo_wrapper/optimizer/efile   -disease_clinvar [4,6]  -score_AF [2,4]  -score_functional [4,6]  -score_NS [2,4]  -score_nIND [2,4]  -AF 0.0001  -scoreeQTL [2,4]   -scoreG [3,5]  -ofile /export/galaxy/database/files/000/dataset_587.dat  2>>/export/galaxy/database/files/000/dataset_586.dat

perl optimizer.pl -leQTL qfile -similarD sfile -disease dilated_ -lgenes
DCM_genes -fileR ALL_DCM_Final.vcf.annovar_ANNOT_B.hg19_multianno.vcf
-fileC test_unaffected.vcf -ofile test_RES_2