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annotate comando_galaxy_optimizer @ 2:6e4eb4856874 draft

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author elixir-it
date Wed, 22 Jul 2020 19:20:30 +0000
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elixir-it
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1 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
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elixir-it
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elixir-it
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3 perl optimizer.pl -leQTL qfile -similarD sfile -disease dilated_ -lgenes
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elixir-it
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4 DCM_genes -fileR ALL_DCM_Final.vcf.annovar_ANNOT_B.hg19_multianno.vcf
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elixir-it
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5 -fileC test_unaffected.vcf -ofile test_RES_2
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elixir-it
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