parse_imgt_fasta {TCRconvertR} | R Documentation |
Extract gene names from a reference FASTA
Description
parse_imgt_fasta()
extracts the second element from a "|"-delimited FASTA
header, which will be the gene name for IMGT reference FASTAs.
Usage
parse_imgt_fasta(infile)
Arguments
infile |
A string, the path to FASTA file. |
Value
A character vector of gene names.
Examples
# Given a FASTA file containing this header:
# >SomeText|TRBV29-1*01|MoreText|
# >SomeText|TRBV29-1*02|MoreText|
# >SomeText|TRBV29/OR9-2*01|MoreText|
fasta <- get_example_path("fasta_dir/test_trbv.fa")
parse_imgt_fasta(fasta)
[Package TCRconvertR version 1.0 Index]