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Revision as of 21:18, 13 December 2015
, 21:18, 13 December 2015→Group Rare Variants from Annotated VCF
* The annotated VCF file should be specified using --annotatedVcf option.
* The annotated VCF file should be specified using --annotatedVcf option.
* --annotation should be used with --annotatedVcf together when specific category of functional variants are of interest to be grouped. For example, if grouping nonsynonymous and splicing variants are of interests, the following should be included in command line:
* --annotation should be used with --annotatedVcf together when specific category of functional variants are of interest to be grouped. For example, if grouping nonsynonymous and splicing variants are of interests, the following should be included in command line:
* (! only available after 4.13.8) when --annotation is not specified, raremetal groups all non-intergenic variants.
--annotatedVcf your.annotated.vcf --annotation nonsyn/splicing
--annotatedVcf your.annotated.vcf --annotation nonsyn/splicing
