Single-Cell RNA Sequencing Pseudo-Time Based Gene Regulatory Network Inference

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Documentation for package ‘pGRN’ version 0.3.5

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

data_transform	Pseudotime based Expression Data Transformation
get_dtw_dist_bidirectional	Bidirectional DTW Distance
get_dtw_dist_mat	DTW distance matrix for all genes
get_networks	Get the list of sub-networks
matrix2adj	Convert distance matrix to adjacency dataframe
module_networks	Get module level networks
pGRN	pGRN: creates gene regulatory network based on single cell pseudotime information
pGRNDB	pGRN example data
plot_network	Plot stationary network
plot_network_i	Plot interactive network
run_dtw	Get network adjacency dataframe based on DTW method
run_granger_test	Use Granger-causality Test to get gene-gene regulatory relationship
slideWindows	Sliding Window Average