HVGERM

<p>A <code>character</code> vector of all 498 human IGHV germline gene segment alleles
in IMGT Gene-db release July 2022, with an additional 25 undocumented alleles from VDJbase.</p>

data

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

HVGERM function

<p>Values correspond to IMGT-gaped nuceltoide sequences (with
nucleotides capitalized and gaps represented by '.').</p>

HVGERM: Human IGHV germlines

Description

Usage

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References