enrich_feature_set

The function chooses genes that are not found to be feature genes as enriched feature genes and assigns them into unique+shared feature gene sets

Cluster-independent method based on topology structure of gene co-expression network for identifying feature gene sets, extracting cellular subpopulations, and elucidating intrinsic relationships among these subpopulations. Without prior cell clustering, SifiNet circumvents potential inaccuracies in clustering that may influence subsequent analyses. This method is introduced in Qi Gao, Zhicheng Ji, Liuyang Wang, Kouros Owzar, Qi-Jing Li, Cliburn Chan, Jichun Xie "SifiNet: a robust and accurate method to identify feature gene sets and annotate cells" (2024) <doi:10.1093/nar/gkae307>.

Qi Gao

SiFINeT

Single Cell Feature Identification with Network Topology

enrich_feature_set function

<dl><dt>so</dt>
<dd>a SiFINeT object</dd>
<dt>min_edge_prop</dt>
<dd>minimum proportion of edges between a gene and a unique+shared feature gene set for the new feature to be assigned to the set</dd></dl>

Arguments

enrich_feature_set — enrich_feature_set

<dl>

<dt>so</dt>
<dd>a SiFINeT object</dd>


<dt>min_edge_prop</dt>
<dd>minimum proportion of edges between a gene and a unique+shared feature gene set for the new feature to be assigned to the set</dd>

</dl>

enrich_feature_set: enrich_feature_set

Description

Usage

Value

Arguments

Details