update hg19 hg38

WGLab · Jan 21, 2018 · 4dd95e7 · 4dd95e7
1 parent 386eec4
commit 4dd95e7
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Showing 19 changed files with 100,957 additions and 51,269 deletions.
diff --git a/Intervar.py b/Intervar.py
diff --git a/config.ini b/config.ini
@@ -1,6 +1,6 @@
 [InterVar]
 buildver = hg19 
-# hg19 
+# hg19  hg38
 inputfile = example/ex1.avinput
 # the inputfile and the path  example/ex1.avinput hg19_clinvar_20151201.avinput
 # tab-delimited will be better for including the other information
@@ -13,7 +13,7 @@ database_intervar = intervardb
 lof_genes = %(database_intervar)s/PVS1.LOF.genes
 pm1_domain = %(database_intervar)s/PM1_domains_with_benigns
 mim2gene = %(database_intervar)s/mim2gene.txt
-morbidmap = %(database_intervar)s/morbidmap.txt
+# morbidmap = %(database_intervar)s/morbidmap.txt
 # disabled for BP5 as reviewer suggested. for OMIM, only mim2gene.txt needed. 
 mim_recessive = %(database_intervar)s/mim_recessive.txt
 mim_domin = %(database_intervar)s/mim_domin.txt
@@ -57,9 +57,9 @@ annotate_variation = ./annotate_variation.pl
 # annotate_variation of file location
 database_locat = humandb 
 # the database location/dir from annnovar   check if database file exists
-database_names = refGene esp6500siv2_all 1000g2015aug avsnp144 dbnsfp30a clinvar_20160302 exac03 dbscsnv11 dbnsfp31a_interpro rmsk ensGene knownGene
+database_names = refGene esp6500siv2_all 1000g2015aug avsnp147 dbnsfp33a clinvar_20170905 exac03 dbscsnv11 dbnsfp31a_interpro rmsk ensGene knownGene
 # specify the database_names from ANNOVAR or UCSC
 [Other]
-current_version = Intervar_20171024 
+current_version = Intervar_20180118 
 # pipeline version
 public_dev = https://github.com/WGLab/InterVar/releases