Pinned Repositories
CollecTRI
Gene regulatory network containing signed transcription factor-target gene interactions
decoupleR
R package to infer biological activities from omics data using a collection of methods.
decoupler-py
Python package to perform enrichment analysis from omics data.
dorothea
R package to access DoRothEA's regulons
liana
LIANA: a LIgand-receptor ANalysis frAmework
liana-py
LIANA+: an all-in-one framework for cell-cell communication
OmnipathR
R client for the OmniPath web service
progeny
R package for Pathway RespOnsive GENe activity inference
pypath
Python module for prior knowledge integration. Builds databases of signaling pathways, enzyme-substrate interactions, complexes, annotations and intercellular communication roles.
visium_heart
Spatial transcriptomics of heart tissue
Saez Lab's Repositories
saezlab/progeny
R package for Pathway RespOnsive GENe activity inference
saezlab/ocean
R package for metabolic enzyme enrichment anaylsis
saezlab/eccb2022_sc_funcomics
Functional analysis of single-cell transcriptomics
saezlab/Combi-Seq-analysis
Analysis code for Combi-Seq paper
saezlab/Microbiome_analysis_course_2022
Mobi microbiome course materials
saezlab/ShinyCNOR
Shiny application for the CellNOptR packages
saezlab/Singlecell_course_2022
Teaching material for the single-cell course 2022
saezlab/snk-tutorial
saezlab/teaching_material
teaching material for various courses
saezlab/2022-SysBioCourse-ACSB
Teaching material for 2022 SysBio Course
saezlab/MedInfNetworks2022
saezlab/OncoSignature
Scripts used to perform the analyses of OncoSignature project for AML
saezlab/PHONEMeS-ILP
ILP implementation of PHONEMeS
saezlab/misty_pipelines
MISTy pipelines used to generate results for the paper
saezlab/Sciacovelli_Dugourd_2021_paper
code for the Sciacovelli_Dugourd_2021 manuscript
saezlab/CNORfeeder
CellNOptR add-on that permits to extend a network with links derived from literature
saezlab/ltp-figures
Visualizations for the LTP project
saezlab/ltp-invitro
Processing pipeline for the in vitro LTP screen
saezlab/ltp-invivo
Processing pipeline for the in vivo LTP screen
saezlab/muscat
Multi-sample multi-group scRNA-seq analysis tools
saezlab/omnipath-decoupler-docker
A Docker image for teaching
saezlab/plasmaContamination
saezlab/plugy
Flexible processing and analysis of plug microfluidics data
saezlab/pypath-omnipath
The database builder part of pypath
saezlab/pypath-resources
The core part of pypath.
saezlab/pypath-server
A twisted based HTTP server that serves databases built by pypath.
saezlab/pypath-utils
Standalone utilities that were formerly part of pypath.
saezlab/redHuman_models
processing of the TFA constrained rehuman model based on recon 3D
saezlab/saezverse
Docker image with all tools from the lab
saezlab/tum-bc