Mercurial > repos > crs4 > kggseq_variant_selection
comparison righe_tolte.txt @ 4:a13b8ff61c6c draft
planemo upload
| author | crs4 |
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| date | Thu, 04 Aug 2016 04:40:06 -0400 |
| parents | |
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| 3:c758125c56d8 | 4:a13b8ff61c6c |
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| 1 <action type="shell_command">java -jar kggseq.jar --no-lib-check --resource-update --resource resources --buildver hg19 --db-filter 1kg201305,1kg201204,1kgafr201204,1kgeur201204,1kgamr201204,1kgasn201204,dbsnp135,dbsnp137,dbsnp138,dbsnp138nf,dbsnp141,ESP6500AA,ESP6500EA,exac --genome-annot --db-gene refgene,gencode,knowngene,ensembl --db-score dbnsfp --superdup-annot --cosmic-annot --omim-annot --scsnv-annot --mouse-pheno --zebrafish-pheno --ddd-annot --mendel-causing-predict all --patho-gene-predict --dgv-cnv-annot --vcf-file examples-lite/rare.disease.hg19.vcf</action> | |
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| 4 <action type="shell_command">java -Xmx4g -jar kggseq.jar --no-lib-check --no-qc --resource-update --resource resources --buildver hg19 --o-flanking-seq 10 --vcf-file examples-lite/rare.disease.hg19.vcf</action> | |
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| 12 questa riga sottostante è l'unione delle due sopra e sarà quella definitiva | |
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| 15 <action type="shell_command">java -jar kggseq.jar --no-lib-check --resource resources --buildver hg19 --db-filter 1kgeur201305,1kgeas201305,1kgafr201305,1kgsas201305,1kgamr201305,1kg201305,1kg201204,1kgafr201204,1kgeur201204,1kgamr201204,1kgasn201204,dbsnp135,dbsnp137,dbsnp138,dbsnp138nf,dbsnp141,ESP6500AA,ESP6500EA,exac --genome-annot --db-gene refgene,gencode,knowngene,ensembl --db-score dbnsfp --superdup-annot --cosmic-annot --omim-annot --scsnv-annot --mouse-pheno --zebrafish-pheno --ddd-annot --mendel-causing-predict all --patho-gene-predict --dgv-cnv-annot --o-flanking-seq 10 --vcf-file examples-lite/rare.disease.hg19.vcf</action> |