From Genome Analysis Wiki
Jump to navigationJump to search
1 byte added
, 14:21, 10 September 2013
Line 64: |
Line 64: |
| * VCF file should be compressed by bgzip and indexed by tabix, using the following command: | | * VCF file should be compressed by bgzip and indexed by tabix, using the following command: |
| bgzip input.vcf ## this command will produce input.vcf.gz | | bgzip input.vcf ## this command will produce input.vcf.gz |
− | tabix -pvcf -f input.vcf.gz ## this command will produce input.vcf.gz.tbi | + | tabix -p vcf -f input.vcf.gz ## this command will produce input.vcf.gz.tbi |
| * Even with the presence of VCF file, PED/DAT files are still needed for covariates and phenotypes. | | * Even with the presence of VCF file, PED/DAT files are still needed for covariates and phenotypes. |
| | | |