get_ref_allele: Retrieve reference allele
In mmaitenat/ideafix: ideafix, DEAmination FIXing
Description
Usage
Arguments
Value
Description
This function retrieves the reference allele of each C:G > T:A variant present in vcf_filename. This data is retrieved from vcf_filename.
Usage
1
get_ref_allele(vcf_filename, ...)
Arguments
vcf_filename
character string naming the path to the input vcf, i.e. the vcf file containing the variants to classify. This file must have been generated with Mutect2, either in tumor only or tumor/normal mode.
...
additional arguments not to be checked.
Value
Character vector with the reference allele of each C:G > T:A variant present in vcf_filename, ordered by appearance in the file.
mmaitenat/ideafix documentation built on Sept. 18, 2021, 7:55 a.m.
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Description Usage Arguments Value
Description
This function retrieves the reference allele of each C:G > T:A variant present in vcf_filename. This data is retrieved from vcf_filename.
Usage
1 | get_ref_allele(vcf_filename, ...)
|
Arguments
vcf_filename |
character string naming the path to the input vcf, i.e. the vcf file containing the variants to classify. This file must have been generated with Mutect2, either in tumor only or tumor/normal mode. |
... |
additional arguments not to be checked. |
Value
Character vector with the reference allele of each C:G > T:A variant present in vcf_filename, ordered by appearance in the file.
R Package Documentation
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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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