Update table_annovar.nf

IARCbioinfo · Jun 20, 2017 · 0053753 · 0053753
1 parent b5ecf79
commit 0053753
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/table_annovar.nf b/table_annovar.nf
@@ -40,7 +40,7 @@ process annovar {
   shell:
   file_name = tables.baseName
   '''
-  table_annovar.pl -nastring NA -buildver hg19 --thread !{params.thread} --onetranscript -remove -protocol refGene,knownGene,ensGene,cytoBand,genomicSuperDups,tfbsConsSites,gwasCatalog,avsnp144,popfreq_all_20150413,exac03nontcga,kaviar_20150923,cosmic77,clinvar_20150330,mcap,revel,dbnsfp30a,dbnsfp31a_interpro,dbscsnv11,germline_catalog_TCGA_560 -operation g,g,g,r,r,r,r,f,f,f,f,f,f,f,f,f,f,f,f -otherinfo !{tables} /appli57/annovar/Annovar_DB/hg19db
+  table_annovar.pl -nastring NA -buildver hg19 --thread !{params.thread} --onetranscript -remove -protocol refGene,knownGene,ensGene,cytoBand,genomicSuperDups,tfbsConsSites,gwasCatalog,avsnp147,popfreq_all_20150413,exac03nontcga,kaviar_20150923,cosmic80,clinvar_20170130,revel,dbnsfp33a,dbnsfp31a_interpro,dbscsnv11 -operation g,g,g,r,r,r,r,f,f,f,f,f,f,f,f,f,f -otherinfo !{tables} /appli57/annovar/Annovar_DB/hg19db
   sed -i '1s/Otherinfo/QUAL\tFILTER\tINFO\tFORMAT\tNORMAL\tPRIMARY\tID\tIndividual\tStudy/' !{tables}.hg19_multianno.txt
   '''