load_path_data

The internal functions of the <code>scapGNN</code> package.
file format:
1. first index: pathway's name or ID.
2. second index: pathway's url or others, it dosen't matter.
3. third to all: gene symbols in pathway.

It is a single cell active pathway analysis tool based on the graph neural network (F. Scarselli (2009) <doi:10.1109/TNN.2008.2005605>; Thomas N. Kipf (2017) <arXiv:1609.02907v4>) to construct the gene-cell association network, infer pathway activity scores from different single cell modalities data, integrate multiple modality data on the same cells into one pathway activity score matrix, identify cell phenotype activated gene modules and parse association networks of gene modules under multiple cell phenotype. In addition, abundant visualization programs are provided to display the results.

Xudong Han 

scapGNN

Graph Neural Network-Based Framework for Single Cell Active
Pathways and Gene Modules Analysis

Xujiang Guo 

load_path_data function

<dl><dt>gmt_file_path</dt>
<dd>Internal parameters.</dd></dl>

Arguments

load pathway or gene set's gmt file — load_path_data

<dl>

<dt>gmt_file_path</dt>
<dd>Internal parameters.</dd>

</dl>

load_path_data: load pathway or gene set's gmt file

Description

Usage

Value

Arguments

Details