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#profiles a set of VNTRs
vt profile_vntrs vntrs.sites.bcf -g vntr.reference.txt
profile_vntrs v0.5
profile_vntrs v0.5
# overlap percentages labeled as (Precision, Sensitivity) and (False Discovery Rate, Type I Error) respectively.
# overlap percentages labeled as (Precision, Sensitivity) and (False Discovery Rate, Type I Error) respectively.
# - annotation.
# - annotation.
# file is used for GENCODE annotation of frame shift and non frame shift Indels.
# file is used for GENCODE annotation of coding VNTRs.
# filter - filter applied to variants for this particular data set.
# filter - filter applied to variants for this particular data set.
# path - path of indexed BCF file.
# path - path of indexed BCF file.
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usage : vt profile_indels [options] <in.vcf>
usage : vt profile_vntrs [options] <in.vcf>
options : -g file containing list of reference datasets []
options : -g file containing list of reference datasets []
