extractASCTable: Extracts the allele cluster table from the archive file.

In piglet: Program for Inferring Immunoglobulin Allele Similarity Clusters and Genotypes

Extracts the allele cluster table from the archive file.

Description

Extracts the allele cluster table from the archive file.

Usage

extractASCTable(archive_file = NULL)

Arguments

archive_file

A path to the asc archive file. Default is null. (see details)

Details

For downloading the latest archive file with the updated allele cluster table, use the function recentAlleleClusters.

Value

Returns the allele cluster table.

The table columns: new_allele - the ASC given allele name func_group - the ASC cluster number imgt_allele - the original IUIS/IMGT allele name thresh - the allele threshold for ASC-based genotype inference amplicon_length - is the original length of the reference set.

Examples

asc_archive <- recentAlleleClusters(doi="10.5281/zenodo.7429773", get_file = TRUE)

allele_cluster_table <- extractASCTable(archive_file = asc_archive)

piglet documentation built on April 12, 2025, 1:27 a.m.