simone: Statistical Inference for MOdular NEtworks (SIMoNe)

Implements the inference of co-expression networks based on partial correlation coefficients from either steady-state or time-course transcriptomic data. Note that with both type of data this package can deal with samples collected in different experimental conditions and therefore not identically distributed. In this particular case, multiple but related networks are inferred on one simone run.

AuthorJulien Chiquet <julien.chiquet@genopole.cnrs.fr>, Gilles Grasseau <gilles.grasseau@genopole.cnrs.fr>, Camille Charbonnier <camille.charbonnier@genopole.cnrs.fr>, Christophe Ambroise <christophe.ambroise@genopole.cnrs.fr>.
Date of publication2016-01-23 00:27:46
MaintainerJulien Chiquet <julien.chiquet@genopole.cnrs.fr>
LicenseGPL (>= 2)
Version1.0-3
http://julien.cremeriefamily.info/simone.html

View on CRAN

Files in this package

simone
simone/inst
simone/inst/CITATION
simone/src
simone/src/inference_algos.c
simone/src/vertex_layout.c
simone/src/inference_utils.h
simone/src/matrix.h
simone/NAMESPACE
simone/demo
simone/demo/check_glasso.R
simone/demo/simone_timeCourse.R
simone/demo/cancer_multitask.R
simone/demo/simone_steadyState.R
simone/demo/simone_multitask.R
simone/demo/cancer_pooled.R
simone/demo/00Index
simone/NEWS
simone/data
simone/data/cancer.rdata
simone/R
simone/R/plot.simone.R simone/R/init.R simone/R/simone.R simone/R/plot.simone.network.R simone/R/Gplot-internals.R simone/R/SimData.R simone/R/InferEdges-internals.R simone/R/Gplot.R simone/R/InferEdges.R simone/R/InferClasses.R
simone/MD5
simone/DESCRIPTION
simone/man
simone/man/simone.Rd simone/man/setOptions.Rd simone/man/simone-internal.Rd simone/man/plot.simone.Rd simone/man/rNetwork.Rd simone/man/coNetwork.Rd simone/man/simone-package.Rd simone/man/data-cancer.Rd simone/man/rTranscriptData.Rd simone/man/getNetwork.Rd simone/man/plot.simone.network.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

All documentation is copyright its authors; we didn't write any of that.