detect_communities_leiden

Performs community detection on a weighted graph using the Leiden algorithm
with CPM (Constant Potts Model) objective function.

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

detect_communities_leiden function

<dl><dt>g</dt>
<dd>An igraph graph object with weighted edges</dd>
<dt>resolution</dt>
<dd>Resolution parameter for Leiden algorithm. Higher values
produce more communities. Default is 1.0.</dd></dl>

Arguments

Leiden community detection — detect_communities_leiden

<dl>

<dt>g</dt>
<dd>An igraph graph object with weighted edges</dd>


<dt>resolution</dt>
<dd>Resolution parameter for Leiden algorithm. Higher values
produce more communities. Default is 1.0.</dd>

</dl>

detect_communities_leiden: Leiden community detection

Description

Usage

Value

Arguments

Details

See Also

Examples