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tasks/annovar.wdl
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| ${annovar_database} -buildver ${hg} \ | ${annovar_database} -buildver ${hg} \ | ||||
| -out ${basename} -remove \ | -out ${basename} -remove \ | ||||
| -protocol refGene,ensGene,knownGene,rmsk,esp6500siv2_all,ALL.sites.2015_08,AFR.sites.2015_08,AMR.sites.2015_08,EAS.sites.2015_08,EUR.sites.2015_08,SAS.sites.2015_08,avsnp147,dbnsfp33a,clinvar_20210501,gnomad_genome,dbscsnv11,dbnsfp31a_interpro \ | -protocol refGene,ensGene,knownGene,rmsk,esp6500siv2_all,ALL.sites.2015_08,AFR.sites.2015_08,AMR.sites.2015_08,EAS.sites.2015_08,EUR.sites.2015_08,SAS.sites.2015_08,avsnp147,dbnsfp33a,clinvar_20210501,gnomad_genome,dbscsnv11,dbnsfp31a_interpro \ | ||||
| -operation g,g,g,r,f,f,f,f,f,f,f,f \ | |||||
| -operation g,g,g,r,f,f,f,f,f,f,f,f,f,f,f,f,f \ | |||||
| -nastring . -vcfinput -thread $nt | -nastring . -vcfinput -thread $nt | ||||
| fi | fi | ||||
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