parse_cispliceai_thresh: Parse VCF output file from CI-SpliceAI with -t flag as table
In TRON-Bioinformatics/splice2neo: Aberrant splice junction analysis with associated mutations
View source: R/parse_cispliceai.R
parse_cispliceai_thresh R Documentation
Parse VCF output file from CI-SpliceAI with -t flag as table
Description
requires the vcfR package.
Usage
parse_cispliceai_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
format_cispliceai_thresh, annotate_mut_effect
Examples
cispliceai_file <- system.file("extdata", "cispliceai_thresh_output.vcf", package = "splice2neo")
parse_cispliceai_thresh(cispliceai_file)
TRON-Bioinformatics/splice2neo documentation built on Nov. 9, 2024, 5:28 p.m.
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View source: R/parse_cispliceai.R
| parse_cispliceai_thresh | R Documentation |
Parse VCF output file from CI-SpliceAI with -t flag as table
Description
requires the vcfR package.
Usage
parse_cispliceai_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
format_cispliceai_thresh, annotate_mut_effect
Examples
cispliceai_file <- system.file("extdata", "cispliceai_thresh_output.vcf", package = "splice2neo")
parse_cispliceai_thresh(cispliceai_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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