Name Mode Size
..
AllClasses.R 100755 0 kb
AllGenerics.R 100755 1 kb
NetResponseModel-accessors.R 100755 10 kb
PlotMixture.R 100755 1 kb
PlotMixtureUnivariate.R 100755 3 kb
add.ellipse.R 100755 1 kb
bic.mixture.R 100755 1 kb
bic.mixture.multivariate.R 100755 2 kb
bic.mixture.univariate.R 100755 2 kb
bic.select.best.mode.R 100755 2 kb
centerData.R 100644 1 kb
check.matrix.R 100755 2 kb
check.network.R 100755 6 kb
continuous.responses.R 100755 3 kb
detect.responses.R 100755 16 kb
enrichment.list.R 100755 1 kb
enrichment.list.factor.R 100755 4 kb
enrichment.list.factor.minimal.R 100755 4 kb
enrichment.score.R 100755 1 kb
factor.responses.R 100755 3 kb
factor.responses.minimal.R 100755 3 kb
filter.netw.R 100755 5 kb
find.similar.features.R 100644 7 kb
firstlib.R 100755 2 kb
get.mis.R 100755 2 kb
independent.models.R 100755 3 kb
information.criteria.R 100755 4 kb
internals.R 100755 34 kb
list.responses.continuous.R 100755 5 kb
list.responses.continuous.multi.R 100755 2 kb
list.responses.factor.R 100755 5 kb
list.responses.factor.minimal.R 100755 5 kb
listify.groupings.R 100755 2 kb
mixture.densities.R 100755 13 kb
mixture.model.R 100755 5 kb
model.stats.R 100755 2 kb
order.responses.R 100755 5 kb
pick.model.pairs.R 100755 4 kb
pick.model.parameters.R 100755 1 kb
pkg-package.R 100755 6 kb
plot-methods.R 100755 27 kb
plot_matrix.R 100755 6 kb
read.network.R 100755 2 kb
response.enrichment.R 100755 4 kb
response2sample.R 100755 4 kb
sample2response.R 100755 2 kb
show-methods.R 100755 1 kb
toydata.R 100755 2 kb
update.model.pair.R 100755 3 kb
utilities.R 100755 3 kb
vdp.mixt.R 100755 11 kb
visualization.R 100755 2 kb
README.md
[![Build Status](https://api.travis-ci.org/antagomir/netresponse.png)](https://travis-ci.org/antagomir/netresponse) <!--[![Stories in Ready](https://badge.waffle.io/antagomir/netresponse.png?label=Ready)](http://waffle.io/antagomir/netresponse)--> <!--[![DOI](https://zenodo.org/badge/4203/rOpenGov/sorvi.png)](https://github.com/rOpenGov/sorvi)--> netresponse =========== Tools for functional network analysis (follow links for references): * [netresponse](http://bioinformatics.oxfordjournals.org/content/26/21/2713) discover context-specific activation patterns in interaction networks * [Interaction Component Model ICMg](http://www.biomedcentral.com/1752-0509/4/4) to discover network modules. Can be supervised by functional information of the network. For installation and usage, check the [tutorial page](vignettes/NetResponse.md). <!--_Bioinformatics_ 2011. {[Abstract](http://bioinformatics.oxfordjournals.org/content/26/21/2713) | [Preprint pdf](http://www.roihu.info/publications/preprints/Lahti10bioinf-preprint.pdf)}--> ### Support You are welcome to: * [submit suggestions and bug reports](https://github.com/antagomir/netresponse/issues) * [send a pull request](https://github.com/antagomir/netresponse/) * ping antagomir at IRCnet or FreeNode ### Authors Maintainer: [Leo Lahti](http://www.iki.fi/Leo.Lahti) Contributors: Olli-Pekka Huovilainen, Antonio Gusmao, Juuso Parkkinen Acknowledgements: This program is partially based on the [AIVGA](http://www.cis.hut.fi/projects/ivga/) Agglomerative Independent Variable Group Analysis source code (v. 1.0) Copyright (C) 2001-2007 Esa Alhoniemi, Antti Honkela, Krista Lagus, Jeremias Seppa, Harri Valpola, and Paul Wagner. [Matlab implementation](http://www.cis.hut.fi/projects/mi/software/NetResponse) is also available but not supported.