importVariantInformation: Import variant information extracted from VCF file into R
In kauralasoo/seqUtils:
Description
The variant information text file can be generated from the VCF using the following
bcftools command:
bcftools query -f '%CHROM\t%POS\t%ID\t%REF\t%ALT\t%TYPE\t%AC\t%AN\n' path/to/vcf_file.vcf.gz | bgzip > path/to/variant_infromation_file.txt.gz
Usage
1
importVariantInformation(path)
Arguments
path
Path to the the variant information text file.
kauralasoo/seqUtils documentation built on May 20, 2019, 7:42 a.m.
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Description
The variant information text file can be generated from the VCF using the following bcftools command: bcftools query -f '%CHROM\t%POS\t%ID\t%REF\t%ALT\t%TYPE\t%AC\t%AN\n' path/to/vcf_file.vcf.gz | bgzip > path/to/variant_infromation_file.txt.gz
Usage
1 | importVariantInformation(path)
|
Arguments
path |
Path to the the variant information text file. |
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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