netmes: Exploratory Analysis of Gene Networks with Netmes, An R package for network-based measures

This package implements various algorithms for an explanatory analysis of network based evaluation measures to assess network inference algorithms systematically.

AuthorAuthor: Gokmen Altay, Frank Emmert-Streib
Date of publication2013-11-22 16:14:58
MaintainerGokmen Altay <altayscience@gmail.com>
LicenseGPL (>= 3)
Version1.0
http://www.bio-complexity.com/

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Files

netmes/DESCRIPTION
netmes/EXAMPLES.txt
netmes/NAMESPACE
netmes/R
netmes/R/TPRall.R netmes/R/evalnetworks.R netmes/R/evalnetworksNames.R netmes/R/motifMI.R netmes/R/motifcount3.R netmes/R/motifrate.R netmes/R/plotDs.R netmes/R/plotMotifs.R netmes/R/readMI.R netmes/R/readNamesMI.R netmes/R/readNet.R netmes/R/readSifNet.R netmes/R/sumdeg.R netmes/R/visnet.R
netmes/data
netmes/data/bio
netmes/data/bio/1
netmes/data/bio/1/mim.exp
netmes/data/bio/1/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/data/bio/2
netmes/data/bio/2/mim.exp
netmes/data/bio/2/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/data/bio/3
netmes/data/bio/3/mim.exp
netmes/data/bio/3/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/data/bio/4
netmes/data/bio/4/mim.exp
netmes/data/bio/4/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/data/bio/5
netmes/data/bio/5/mim.exp
netmes/data/bio/5/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/data/networkDAG.sif
netmes/data/networkEcoli.sif
netmes/data/syn
netmes/data/syn/1
netmes/data/syn/1/mim.exp
netmes/data/syn/1/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/data/syn/2
netmes/data/syn/2/mim.exp
netmes/data/syn/2/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/data/syn/3
netmes/data/syn/3/mim.exp
netmes/data/syn/3/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/data/syn/4
netmes/data/syn/4/mim.exp
netmes/data/syn/4/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/data/syn/5
netmes/data/syn/5/mim.exp
netmes/data/syn/5/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/inst
netmes/inst/CITATION
netmes/inst/doc
netmes/inst/doc/netmes-manual.pdf
netmes/inst/extdata
netmes/inst/extdata/bio
netmes/inst/extdata/bio/1
netmes/inst/extdata/bio/1/mim.exp
netmes/inst/extdata/bio/1/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/inst/extdata/bio/2
netmes/inst/extdata/bio/2/mim.exp
netmes/inst/extdata/bio/2/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/inst/extdata/bio/3
netmes/inst/extdata/bio/3/mim.exp
netmes/inst/extdata/bio/3/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/inst/extdata/bio/4
netmes/inst/extdata/bio/4/mim.exp
netmes/inst/extdata/bio/4/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/inst/extdata/bio/5
netmes/inst/extdata/bio/5/mim.exp
netmes/inst/extdata/bio/5/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/inst/extdata/networkDAG.sif
netmes/inst/extdata/networkEcoli.sif
netmes/inst/extdata/syn
netmes/inst/extdata/syn/1
netmes/inst/extdata/syn/1/mim.exp
netmes/inst/extdata/syn/1/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/inst/extdata/syn/2
netmes/inst/extdata/syn/2/mim.exp
netmes/inst/extdata/syn/2/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/inst/extdata/syn/3
netmes/inst/extdata/syn/3/mim.exp
netmes/inst/extdata/syn/3/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/inst/extdata/syn/4
netmes/inst/extdata/syn/4/mim.exp
netmes/inst/extdata/syn/4/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/inst/extdata/syn/5
netmes/inst/extdata/syn/5/mim.exp
netmes/inst/extdata/syn/5/nn100_nbgr0_hop0.3_bionoise0.05_expnoise0.0_corrnoise0.0_neighAdd_maxExpr1_dataset.txt
netmes/man
netmes/man/TPRall.Rd netmes/man/evalnetworks.Rd netmes/man/evalnetworksNames.Rd netmes/man/motifcount3.Rd netmes/man/plotDs.Rd netmes/man/plotMotifs.Rd netmes/man/readNet.Rd netmes/man/readSifNet.Rd netmes/man/sumdeg.Rd netmes/man/visnet.Rd

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