-
Notifications
You must be signed in to change notification settings - Fork 0
License
molsysbio/STASNet
Folders and files
Name | Name | Last commit message | Last commit date | |
---|---|---|---|---|
Repository files navigation
Copyright (c) Nils Blüthgen and Bertram Klinger and Mathurin Dorel, 2013- Gnu General Public Licence version 3 (GPLv3) --- The library contains the levmar-package (version 2.5) for optimization (c) by Manolis Lourakis (see src/levmar-2.5/README.txt) --- This library can be used to model signalling perturbation data using models that are derived from Modular Response Analysis using R. Requires the following C++ libraries to be installed (installation method depends on the OS): ginac cln pkg-config (at least Mac OS) And the following R packages: Rcpp (>= 0.10.4) BH RhpcBLASctl Rgraphviz pheatmap lattice lhs parallel You can install those packages in R with: source("https://bioconductor.org/biocLite.R") biocLite(c("Rcpp","BH","RhpcBLASctl","Rgraphviz","pheatmap","lattice","lhs","parallel")) Unix (MacOS, BSD, GNU/Linux) installation guide: For a local installation, first create a folder for local R library in (e.g "home/<Username>/R") Open shell go to the folder of the package (“STASNet”) execute: R CMD INSTALL ./ (when recompiling use R CMD INSTALL --preclean ./) Note: for some newer OS versions you have to specify the c++ version: prior to installing the package execute: export PKG_CXXFLAGS='`Rscript -e "Rcpp:::CxxFlags()"` -std=c++11' Have fun with it! --- If you use this program in publications, please cite one of the following paper: Dorel, M.; Klinger, B.; Sieber, A.; Prahallad, A.; Gross, T.; Bosdriesz, E.; Wessels, L. and Blüthgen, N. Modelling Signalling Networks from Perturbation Data. Bioinformatics, early online, 2018. [doi](https://doi.org/10.1093/bioinformatics/bty473) Klinger, B.; Sieber, A.; Fritsche-Guenther, R.; Witzel, F.; Berry, L.; Schumacher, D.; Yan, Y.; Durek, P.; Merchant, M.; Schäfer, R.; Sers, C. and Blüthgen, N. Network quantification of EGFR signaling unveils potential for targeted combination therapy. Molecular Systems Biology, 9: 673, 2013. [doi](http://dx.doi.org/10.1038/msb.2013.29)
About
No description, website, or topics provided.
Resources
License
Stars
Watchers
Forks
Packages 0
No packages published