netbenchmark: Benchmarking of several gene network inference methods

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This package implements a benchmarking of several gene network inference algorithms from gene expression data.

Author
Pau Bellot, Catharina Olsen, Patrick Meyer, with contributions from Alexandre Irrthum
Date of publication
None
Maintainer
Pau Bellot <pau.bellot@upc.edu>
License
CC BY-NC-SA 4.0
Version
1.6.0
URLs

View on Bioconductor

Man pages

aracne.wrap
aracne wrapper function
c3net.wrap
c3net wrapper function
clr.wrap
CLR wrapper function
comp.metr
Compute metrics
datasource.subsample
Subsampling datasource procedure
evaluate
Inference Evaluation
experiments.bench
Noise sensitivity benchmark
GeneNet.wrap
GeneNet wrapper function
Genie3.wrap
Genie3 wrapper function
mrnetb.wrap
mrnetb wrapper function
mrnet.wrap
mrnet wrapper function
mutrank.wrap
Mutual Rank wrapper function
netbenchmark
Benchmarking of several network inference algorithms from...
netbenchmark.data
Benchmarking of several network inference algorithms for your...
netbenchmark-package
Benchmarking of several inference networks methods
noise.bench
Noise sensitivity test
ntb_globals
Available wrappers in the package of the fast methods
pcit.wrap
pcit wrapper function
rate
Inference Validation
RegistrerWrapper
Wrapper (un)registration routine
zsc
Z-score c++ function
zscore.wrap
Zscore wrapper function

Files in this package

netbenchmark/CHANGES
netbenchmark/DESCRIPTION
netbenchmark/NAMESPACE
netbenchmark/R
netbenchmark/R/GeneNet.wrap.R
netbenchmark/R/Genie3.wrap.R
netbenchmark/R/RcppExports.R
netbenchmark/R/RegistrerWrapper.R
netbenchmark/R/aracne.wrap.R
netbenchmark/R/c3net.wrap.R
netbenchmark/R/clr.wrap.R
netbenchmark/R/comp.metr.R
netbenchmark/R/dataset.subsample.R
netbenchmark/R/evaluate.R
netbenchmark/R/experiments.bench.R
netbenchmark/R/mrnet.wrap.R
netbenchmark/R/mrnetb.wrap.R
netbenchmark/R/mutrank.wrap.R
netbenchmark/R/netbenchmark.R
netbenchmark/R/netbenchmark.data.R
netbenchmark/R/noise.bench.R
netbenchmark/R/on_load.R
netbenchmark/R/pcit.wrap.R
netbenchmark/R/zscore.wrap.R
netbenchmark/build
netbenchmark/build/vignette.rds
netbenchmark/inst
netbenchmark/inst/CITATION
netbenchmark/inst/NEWS
netbenchmark/inst/doc
netbenchmark/inst/doc/netbenchmark.R
netbenchmark/inst/doc/netbenchmark.Rmd
netbenchmark/inst/doc/netbenchmark.html
netbenchmark/inst/unitTests
netbenchmark/inst/unitTests/test_datasource.subsample.R
netbenchmark/inst/unitTests/test_evaluate.R
netbenchmark/man
netbenchmark/man/GeneNet.wrap.Rd
netbenchmark/man/Genie3.wrap.Rd
netbenchmark/man/RegistrerWrapper.Rd
netbenchmark/man/aracne.wrap.Rd
netbenchmark/man/c3net.wrap.Rd
netbenchmark/man/clr.wrap.Rd
netbenchmark/man/comp.metr.Rd
netbenchmark/man/datasource.subsample.Rd
netbenchmark/man/evaluate.Rd
netbenchmark/man/experiments.bench.Rd
netbenchmark/man/mrnet.wrap.Rd
netbenchmark/man/mrnetb.wrap.Rd
netbenchmark/man/mutrank.wrap.Rd
netbenchmark/man/netbenchmark-package.Rd
netbenchmark/man/netbenchmark.Rd
netbenchmark/man/netbenchmark.data.Rd
netbenchmark/man/noise.bench.Rd
netbenchmark/man/ntb_globals.Rd
netbenchmark/man/pcit.wrap.Rd
netbenchmark/man/rate.Rd
netbenchmark/man/zsc.Rd
netbenchmark/man/zscore.wrap.Rd
netbenchmark/src
netbenchmark/src/RcppExports.cpp
netbenchmark/src/netbenchmark_init.c
netbenchmark/src/rate.cpp
netbenchmark/src/zsc.cpp
netbenchmark/tests
netbenchmark/tests/runTests.R
netbenchmark/vignettes
netbenchmark/vignettes/netbenchmark.Rmd