vcf_remove_sample: take vcf read in chunks and write clean vcf
In kevinmhadi/khtools: Making Mskilab Life Easier
vcf_remove_sample R Documentation
take vcf read in chunks and write clean vcf
Description
take vcf read in chunks and write clean vcf without sample info
i.e. fixing up svaba indel crap
Usage
vcf_remove_sample(
x =
"/gpfs/commons/groups/imielinski_lab/data/PCAWG/mutations/f393baf9-2710-9203-e040-11ac0d484504,vcf",
out.vcf = "~/outtest.vcf",
ref = "~/DB/GATK/hg19_gatk_decoy.fasta",
chunk = 10000,
verbose = TRUE
)
Value
character
kevinmhadi/khtools documentation built on Jan. 16, 2025, 4:18 p.m.
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| vcf_remove_sample | R Documentation |
take vcf read in chunks and write clean vcf
Description
take vcf read in chunks and write clean vcf without sample info i.e. fixing up svaba indel crap
Usage
vcf_remove_sample(
x =
"/gpfs/commons/groups/imielinski_lab/data/PCAWG/mutations/f393baf9-2710-9203-e040-11ac0d484504,vcf",
out.vcf = "~/outtest.vcf",
ref = "~/DB/GATK/hg19_gatk_decoy.fasta",
chunk = 10000,
verbose = TRUE
)
Value
character
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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