readIgFasta: Read immunoglobulin sequences

In tigger: Infers Novel Immunoglobulin Alleles from Sequencing Data

Read immunoglobulin sequences

Description

readIgFasta reads a fasta-formatted file of immunoglobulin (Ig) sequences and returns a named vector of those sequences.

Usage

readIgFasta(fasta_file, strip_down_name = TRUE, force_caps = TRUE)

Arguments

fasta_file	fasta-formatted file of immunoglobuling sequences.
strip_down_name	if TRUE, will extract only the allele name from the strings fasta file's sequence names.
force_caps	if TRUE, will force nucleotides to uppercase.

Value

Named vector of strings respresenting Ig alleles.

See Also

writeFasta to do the inverse.

Examples

## Not run: 
# germlines <- readIgFasta("ighv.fasta")

## End(Not run)

tigger documentation built on Oct. 10, 2023, 5:08 p.m.