SEMgsa_replication/README.md

In fernandoPalluzzi/SEMgraph: Network Analysis and Causal Inference Through Structural Equation Modeling

SEMgsa: topology-based pathway enrichment analysis with Structural Equation Models

by Mario Grassi and Barbara Tarantino

This folder contains the following data and files that can be used to reproduce the analysis of the manuscript. The folder structure can be summarised as follows:

./Data/:

GSE172114_series_matrix.txt.gz
GSE172114_rsem_gene_count_matrix_TMM_69samples.csv
Raw COVID-19 source data

./R/:

Main_sim.R
An R script to run Data simulations

Main_true.R
An R script to run True data analysis

Help.R
An R script with functions to import for running the analysis

Notes

1. Set folder SEMgsa_code_data as the current working directory.
2. Specify a smaller number of iterations through the "N" argument to reduce computing time for data simulations.

Data source

The original data used in this research can be downloaded at GSE172114.

fernandoPalluzzi/SEMgraph documentation built on Feb. 20, 2025, 4:27 p.m.