XMRF: Markov Random Fields for High-Throughput Genetics Data

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Fit Markov Networks to a wide range of high-throughput genomics data.

Author
Ying-Wooi Wan, Genevera I. Allen, Yulia Baker, Eunho Yang, Pradeep Ravikumar, Zhandong Liu
Date of publication
2015-06-25 07:07:40
Maintainer
Ying-Wooi Wan <yingwoow@bcm.edu>
License
GPL-2
Version
1.0
URLs

View on CRAN

Man pages

brcadat
RNA-Seq Data of BRCA Patients from TCGA
ggm.fit
Fitted Gaussian Graphical Models
GMS
Graphical Models Object
lambdaMax
Maximum lambda
plotGML
Plot Network in GML
plot.GMS
Plot GMS Object
plotNet
Plot Network
processSeq
Process Sequencing Data for Poisson-based MRFs
XMRF
Markov Random Fields for Exponential Family Distributions
XMRF-package
A R Package to Fit Markov Networks to High-throughput...
XMRF.Sim
Generate simulated data from XMRF models

Files in this package

XMRF
XMRF/src
XMRF/src/LPGM_neighborhood.c
XMRF/NAMESPACE
XMRF/data
XMRF/data/ggm.fit.rda
XMRF/data/brcadat.rda
XMRF/R
XMRF/R/plotNet.R
XMRF/R/adj2A.R
XMRF/R/glm.generic.R
XMRF/R/WeightNet.R
XMRF/R/WPGMSim.R
XMRF/R/PGM.R
XMRF/R/GMS.R
XMRF/R/LPGM.network.R
XMRF/R/glm.network.R
XMRF/R/mymult.R
XMRF/R/rmpois.R
XMRF/R/LPGM.path.neighborhood.R
XMRF/R/GGM.R
XMRF/R/myglmnet.max.R
XMRF/R/PGMSim.R
XMRF/R/Bsublin.R
XMRF/R/LPGM.R
XMRF/R/PGM.network.R
XMRF/R/print.GMS.R
XMRF/R/PGM.path.neighborhood.R
XMRF/R/vec.norm.R
XMRF/R/TPGM.R
XMRF/R/lambdaMax.R
XMRF/R/processSeq.R
XMRF/R/simGraph.R
XMRF/R/SPGM.R
XMRF/R/glmnetEmpty.R
XMRF/R/plotGML.R
XMRF/R/XMRF.Sim.R
XMRF/R/ANDNet.R
XMRF/R/XMRF.R
XMRF/R/ISM.R
XMRF/R/zzz.R
XMRF/R/plot.GMS.R
XMRF/MD5
XMRF/DESCRIPTION
XMRF/man
XMRF/man/processSeq.Rd
XMRF/man/GMS.Rd
XMRF/man/plot.GMS.Rd
XMRF/man/XMRF.Rd
XMRF/man/lambdaMax.Rd
XMRF/man/plotGML.Rd
XMRF/man/brcadat.Rd
XMRF/man/XMRF.Sim.Rd
XMRF/man/plotNet.Rd
XMRF/man/XMRF-package.Rd
XMRF/man/ggm.fit.Rd