read.snpeff.vcf: Read a SnpEff annotated VCF file.
In jjellis/GenomicVis: Genomic Visualisation Routines
Description
Usage
Arguments
Value
Author(s)
Description
Illustrative function to read gene names from a VCF file that has been
annotated with SnpEff.
Usage
1
read.snpeff.vcf(f, genome, tumour.id, exclude.filtered = TRUE)
Arguments
f
f
genome
genome
tumour.id
tumour id
exclude.filtered
logical, exclude filtered variants (defined as
variants with some thing other that 'PASS' or '.' in their FILTER
column).
Value
A data.frame.
Author(s)
Jonathan Ellis <jonathan.j.ellis@gmail.com>
jjellis/GenomicVis documentation built on May 19, 2019, 11:39 a.m.
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Description Usage Arguments Value Author(s)
Description
Illustrative function to read gene names from a VCF file that has been annotated with SnpEff.
Usage
1 | read.snpeff.vcf(f, genome, tumour.id, exclude.filtered = TRUE)
|
Arguments
f |
f |
genome |
genome |
tumour.id |
tumour id |
exclude.filtered |
logical, exclude filtered variants (defined as variants with some thing other that 'PASS' or '.' in their FILTER column). |
Value
A data.frame.
Author(s)
Jonathan Ellis <jonathan.j.ellis@gmail.com>
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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