def_net_modules: Identify the the edge of the modules (blocks) within the net...

In naikai/sake: Single-cell RNA-Seq Analysis and Klustering Evaluation

Identify the the edge of the modules (blocks) within the net connectivity matrix

Description

1. Run for loops to detect the block
2. Detect edge genes in each block and their gene idx
3. Go back to the original 100x100 matrix and use the edge genes (idx) to define block

Usage

def_net_modules(core_sub_jaccard_dist, sub_jaccard_dist,
  min.connectivity = 0.2, min.size = 5)

Arguments

data	Input expression data
tao	threshold for hard transformation
beta	parameter for soft power transformation
num_features	Number of top high connective genes to be used

Examples

def_net_modules(data, tao=0.5, beta=10, num_feature=0.01)

naikai/sake documentation built on Feb. 15, 2023, 11 p.m.