Updated juno resource file

mskcc · Nov 11, 2024 · aa3d3cb · aa3d3cb
1 parent 8b65eea
commit aa3d3cb
Showing 1 changed file with 4 additions and 1 deletion.
diff --git a/conf/juno_resources.config b/conf/juno_resources.config
@@ -3,7 +3,7 @@ genome_resources {
         'GRCh37' {
             fasta       = '/compute/juno/bic/ROOT/work/ci/resources/genomes/GRCh37/fasta/b37.fasta'
             dbsnp       = '/compute/juno/bic/ROOT/work/ci/resources/genomes/GRCh37/dbsnp/129/dbsnp_138.b37.excluding_sites_after_129.vcf'
-            facets_snps = '/compute/juno/bic/ROOT/work/ci/resources/genomes/GRCh37/facets_snps/dbsnp_137.b37__RmDupsClean__plusPseudo50__DROP_SORT.vcf'
+            facets_snps = '/compute/juno/cmo/cse/nikhil/resource/dbsnp_138.b37.vcf.gz'
             delly       = '/compute/juno/bic/ROOT/work/ci/resources/genomes/GRCh37/delly/human.hg19.excl.tsv'
             cosmic      = '/compute/juno/bic/ROOT/work/ci/resources/genomes/GRCh37/cosmic/67/CosmicCodingMuts_v67_b37_20131024__NDS.vcf'
             intervals   = ['1', '2', '3', '4', '5', '6', '7', '8', '9', '10', '11', '12', '13', '14', '15', '16', '17', '18', '19', '20', '21', '22', 'X', 'Y', 'MT']
@@ -13,6 +13,9 @@ genome_resources {
     resources {
         hotspot      =  '/compute/juno/bic/ROOT/work/ci/resources/qc_resources/hotspot-list-union-v1-v2.vcf'
         exac_filter  =  '/compute/juno/bic/ROOT/work/ci/resources/vep/cache/ExAC_nonTCGA.r0.3.1.sites.vep.vcf.gz'
+        hapmap       =  '/compute/juno/bic/ROOT/work/ci/resources/request_files/hapmap/hapmap_3.3.b37.vcf'
+        indels_1000g =  '/compute/juno/bic/ROOT/work/ci/resources/request_files/indels_1000g/Mills_and_1000G_gold_standard.indels.b37.vcf'
+        snps_1000g   =  '/compute/juno/bic/ROOT/work/ci/resources/request_files/snps_1000g/1000G_phase1.snps.high_confidence.b37.vcf'
     }
 
     assay_coverage = [