allele_cluster_table

<p>A <code>data.table</code> of the allele similarity cluster table based on the
<code>HVGERM</code> and <code>hv_functionality</code> germlie reference set. This is not the latest
version of the allele similarity cluster table. For the latest version please refer either to the
zenodo doi or you can use the <code>recentAlleleClusters</code></p>

table

Improves genotype inference and downstream Adaptive Immune Receptor Repertoire Sequence data analysis. Inference of allele similarity clusters, an alternative naming scheme and genotype inference for immunoglobulin heavy chain repertoires.
The main tools are allele similarity clusters, and allele based genotype. The first tool is designed to reduce the ambiguity within the immunoglobulin heavy chain V alleles. The ambiguity is caused by duplicated or similar alleles which are shared among different genes.
The second tool is an allele based genotype, that determined the presence of an allele based on a threshold derived from a naive population. See Peres et al. (2023) <doi:10.1093/nar/gkad603>.

Ayelet Peres

piglet

Program for Inferring Immunoglobulin Allele Similarity Clusters
and Genotypes

William Lees

Gur Yaari

allele_cluster_table function

<p>An object of class <code>data.table</code> (inherits from <code>data.frame</code>) with 286 rows and 5 columns.</p>

allele_cluster_table: Allele similarity cluster table

Description

Usage

Arguments

Format

References