ATAC_net

<p>A list to store the gene association network of scATAC-seq data.
Case data from the SNARE-seq dataset.</p>

datasets

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 

ATAC_net function

<p>a list of three adjacency matrices.</p>

ATAC_net: Results of ConNetGNN() for scATAC-seq data from SNARE-seq dataset

Description

Usage

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Examples