parse_spliceai_thresh: Parse VCF output file from SpliceAI with -T flag as table
In TRON-Bioinformatics/splice2neo: Aberrant splice junction analysis with associated mutations
View source: R/parse_spliceai.R
parse_spliceai_thresh R Documentation
Parse VCF output file from SpliceAI with -T flag as table
Description
requires the vcfR package.
Usage
parse_spliceai_thresh(vcf_file)
Arguments
vcf_file
path to a single VCF file, the output of spliceAI
Value
a tibble with one row per variant
annotation. Each input variant can have multiple annotations.
See Also
parse_spliceai, format_spliceai_thresh, annotate_mut_effect
Examples
spliceai_file <- system.file("extdata", "spliceai_thresh_output.vcf", package = "splice2neo")
parse_spliceai_thresh(spliceai_file)
TRON-Bioinformatics/splice2neo documentation built on July 27, 2024, 3:25 a.m.
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View source: R/parse_spliceai.R
| parse_spliceai_thresh | R Documentation |
Parse VCF output file from SpliceAI with -T flag as table
Description
requires the vcfR package.
Usage
parse_spliceai_thresh(vcf_file)
Arguments
vcf_file |
path to a single VCF file, the output of spliceAI |
Value
a tibble with one row per variant annotation. Each input variant can have multiple annotations.
See Also
parse_spliceai, format_spliceai_thresh, annotate_mut_effect
Examples
spliceai_file <- system.file("extdata", "spliceai_thresh_output.vcf", package = "splice2neo")
parse_spliceai_thresh(spliceai_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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