Entering edit mode
9.1 years ago
jan
▴
170
Hi,
I'm trying to annotate vcf files for dbNSFP using snpSIFT.
I have downloaded the database and index file from the snpSift manual page.
I'm getting error when I run the program
java -jar ~/snpEff_latest_core/snpEff/SnpSift.jar dbnsfp -v -db ~/snpEff_latest_core/snpEff/0B7Ms5xMSFMYlSTY5dDJjcHVRZ3M.gz comb.vcf > out.vcf
00:00:00.000 SnpSift version 4.1k (build 2015-09-07), by Pablo Cingolani
00:00:00.006 Command: 'DBNSFP'
00:00:00.007 Reading configuration file 'snpEff.config'
00:00:01.120 done
00:00:01.121 Annotating
Input file : 'comb.vcf'
Database file : '/home/jannahS/snpEff_latest_core/snpEff/0B7Ms5xMSFMYlSTY5dDJjcHVRZ3M.gz'
Fatal error: Tabix index not found for database '/home/jannahS/snpEff_latest_core/snpEff/0B7Ms5xMSFMYlSTY5dDJjcHVRZ3M.gz'.
SnpSift dbNSFP only works with tabix indexed databases, please create or download index.
Do I need to do something on the index file that I've downloaded?