Computational Systems Biology of Cancer at Institut Curie's repositories
Logical_modelling_pipeline
Repository of the pipeline of computational methods for logical modelling of biological networks that are deregulated in diseases, developed by the Computational Systems Biology of Cancer group in Bioinformatics Laboratory of Institut Curie (Paris)
Reproducible-research-working-group
Materials of the working group on reproducible research in Computational Systems Biology of Cancer Group
ElPiGraph.R
An R package to construct Elastic Principal Graphs
DockerCollection
A collection of Docker images to run different softwares
Roma_tutorial_v2018
Files needed for different tutorials on ROMA tool
rRoma_v2018
An r interface to perform ROMA
rRomaDash_v2018
a shiny dashboard to interact with rRoma
Sinkhorn-Knopp-normalization
MATLAB implementation of the normalization of a matrix by converting it to double stochastic matrix using Sinkhorn-Knopp algorithm from Sinkhorn, Richard, & Knopp, Paul. (1967). "Concerning nonnegative matrices and doubly stochastic matrices". Pacific J. Math. 21, 343–348
ModuleManager
Module Manager based on names, application for Cytoscape 3.x
cBioFetchR
R package to fetch data from cBioPortal using a list of genes.
CellDesigner_networks_map_integration_procedure
Procedure for integration of networks of CellDesigner maps
M5-project-materials
Code and data created in the project M5 (Mathematical modeling of medulloblastoma molecular mechanisms)
NaviCom_portal
NaviCom web portal for communication between cBioPortal and NaviCell
PQSQ-DataApproximators
Matlab and Java implementations of data analysis methods based on piece-wise quadratic approximation error (PQSQ)
Prostate_map_NaviCell_tutorial
Tutorial to convert a Cytoscape network into a Navicell map, applied to our prostate network
ProteinTranslationModels
Basic, simple and extendable modeling of protein synthesis