Saez Lab's repositories
HF_meta-analysis
Code that generates results and figures from: "A Consensus Transcriptional Landscape of Human End-Stage Heart Failure"
visium_colon_si
ST pipelines on mouse colon and small intestine
cosmos_meta_PKN_redhuman
new lighter and streamlined PKN generation, based on redHuman reaction network
gene-network-inference-in-R
Mutual information-based and bicor-based methods for genome-wide reverse engineering of gene regulatory networks in R.
liver-disease-atlas
Transcriptomic cross-species analysis of chronic liver disease reveals consistent regulation between humans and mice
CausalToxNet
supporting material for "Contextualization of causal regulatory networks from toxicogenomics data applied to drug-induced liver injury"
2021-SysBioCourse-ACSB
Teaching material for Sysbio course 2021
Albert_perez_RNA_lipid
Analasing an RNA-lipidomic dataset from Albert Perez-Marti. They treated cell lines with different lipids and inhibitors and measured RNA and lipids.
CellChat
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
conformationomic_yeast_picotti_2020
Conformationomic dataset (+phospho) of yeast osmotic stress to explore possibilities with this type of data.
iPC_DREAM_dockers
OpenEBench TCGA benchmarking Docker declarations
NATMI
NATMI: Network Analysis Toolkit for the Multicellular Interactions
ocean_thesis
code to reproduce the ocean benchmark of Aurelien PhD thesis
SingleCellSignalR_v1
R package