networkBMA: Regression-based network inference using Bayesian Model Averaging

An extension of Bayesian Model Averaging (BMA) for network construction using time series gene expression data. Includes assessment functions and sample test data.

AuthorChris Fraley, Wm. Chad Young, Ling-Hong Hung, Kaiyuan Shi, Ka Yee Yeung, Adrian Raftery (with contributions from Kenneth Lo)
Date of publicationNone
MaintainerKa Yee Yeung <kayee@u.washington.edu>
LicenseGPL (>= 2)
Version2.12.0

View on Bioconductor

Functions

bicreg.pr Man page
bicreg.pr.resid Man page
brem.data Man page
contabs Man page
contabs.netwBMA Man page
contabs.prelim Man page
dream4gold10 Man page
dream4gold100 Man page
dream4ts10 Man page
dream4ts100 Man page
dream4wild10 Man page
dream4wild100 Man page
fastBMAcontrol Man page
fastgControl Man page
gControl Man page
iBMAcontrolLM Man page
iterateBMAlm Man page
iterateBMA.resid Man page
list2df Man page
matrixFormat Man page
networkBMA Man page
prc Man page
referencePairs Man page
reg.known Man page
reg.prob Man page
roc Man page
ScanBMA Man page
ScanBMAcontrol Man page
scores Man page
summary.networkBMA Man page
timeSeries Man page
varord Man page
vignette Man page
writeEdges Man page

Files

networkBMA/DESCRIPTION
networkBMA/NAMESPACE
networkBMA/NEWS
networkBMA/R
networkBMA/R/FastScanBMABIC.r
networkBMA/R/FastScanBMAg.r
networkBMA/R/RcppExports.R networkBMA/R/ScanBMA.R
networkBMA/R/ScanBMABIC.r
networkBMA/R/ScanBMAcontrol.R
networkBMA/R/ScanBMAg.r
networkBMA/R/bicreg.pr.R networkBMA/R/bicreg.pr.resid.R networkBMA/R/contabs.R networkBMA/R/contabs.netwBMA.R networkBMA/R/contabs.prelim.R networkBMA/R/fastBMA.R networkBMA/R/fastBMAcontrol.R networkBMA/R/iBMAcontrolLM.R networkBMA/R/iterateBMAlm.R networkBMA/R/iterateBMAlm.resid.R networkBMA/R/list2df.R networkBMA/R/matrixFormat.R networkBMA/R/networkBMA.R networkBMA/R/prc.R networkBMA/R/refNetwCalc.R networkBMA/R/roc.R networkBMA/R/scores.R networkBMA/R/summary.networkBMA.R networkBMA/R/varord.R networkBMA/R/writeEdges.R
networkBMA/build
networkBMA/build/vignette.rds
networkBMA/data
networkBMA/data/datalist
networkBMA/data/dream4.rda
networkBMA/data/vignette.rda
networkBMA/include
networkBMA/include/cblas.h
networkBMA/include/lapacke.h
networkBMA/include/lapacke_config.h
networkBMA/include/lapacke_mangling.h
networkBMA/include/lapacke_utils.h
networkBMA/inst
networkBMA/inst/CITATION
networkBMA/inst/cite
networkBMA/inst/doc
networkBMA/inst/doc/networkBMA.R
networkBMA/inst/doc/networkBMA.Rnw
networkBMA/inst/doc/networkBMA.pdf
networkBMA/inst/unitTests
networkBMA/man
networkBMA/man/ScanBMA.Rd networkBMA/man/ScanBMAcontrol.Rd networkBMA/man/contabs.Rd networkBMA/man/contabs.netwBMA.Rd networkBMA/man/contabs.prelim.Rd networkBMA/man/dream4.Rd networkBMA/man/fastBMAcontrol.Rd networkBMA/man/fastgControl.Rd networkBMA/man/gControl.Rd networkBMA/man/iBMAcontrolLM.Rd networkBMA/man/iterateBMAlm.Rd networkBMA/man/networkBMA-internal.Rd networkBMA/man/networkBMA.Rd networkBMA/man/roc.Rd networkBMA/man/scores.Rd networkBMA/man/summary.networkBMA.Rd networkBMA/man/varord.Rd networkBMA/man/vignette.Rd networkBMA/man/writeEdges.Rd
networkBMA/networkBMA.Rproj
networkBMA/src
networkBMA/src/Makevars
networkBMA/src/Makevars.win
networkBMA/src/MurmurHash3.cpp
networkBMA/src/MurmurHash3.h
networkBMA/src/RcppExports.cpp
networkBMA/src/ScanBMA_full.cpp
networkBMA/src/bmaNoMPI.hpp
networkBMA/src/config.h
networkBMA/src/config.h.in
networkBMA/src/data
networkBMA/src/data/PHH.tab
networkBMA/src/data/brem.data.tab
networkBMA/src/data/data.tab
networkBMA/src/data/prob.tab
networkBMA/src/data/referencePairs.tab
networkBMA/src/data/reg.known.tab
networkBMA/src/data/reg.prob.list
networkBMA/src/data/reg.prob.tab
networkBMA/src/data/timeSeries.tab
networkBMA/src/fastBMA.hpp
networkBMA/src/fastBMAR.cpp
networkBMA/src/include
networkBMA/src/include/cblas.h
networkBMA/src/include/lapacke.h
networkBMA/src/include/lapacke_config.h
networkBMA/src/include/lapacke_mangling.h
networkBMA/src/include/lapacke_utils.h
networkBMA/src/include/old_cblas.h
networkBMA/src/include/old_f77blas.h
networkBMA/src/include/old_lapacke.h
networkBMA/src/include/openblas_config.h
networkBMA/src/lib
networkBMA/src/lib/cmake
networkBMA/src/lib/cmake/openblas
networkBMA/src/my_sort.hpp
networkBMA/src/tclap-1.2.1
networkBMA/src/tclap-1.2.1/AUTHORS
networkBMA/src/tclap-1.2.1/COPYING
networkBMA/src/tclap-1.2.1/ChangeLog
networkBMA/src/tclap-1.2.1/INSTALL
networkBMA/src/tclap-1.2.1/Makefile.am
networkBMA/src/tclap-1.2.1/Makefile.in
networkBMA/src/tclap-1.2.1/NEWS
networkBMA/src/tclap-1.2.1/README
networkBMA/src/tclap-1.2.1/aclocal.m4
networkBMA/src/tclap-1.2.1/config
networkBMA/src/tclap-1.2.1/config/Makefile.am
networkBMA/src/tclap-1.2.1/config/Makefile.in
networkBMA/src/tclap-1.2.1/config/ac_cxx_have_long_long.m4
networkBMA/src/tclap-1.2.1/config/ac_cxx_have_sstream.m4
networkBMA/src/tclap-1.2.1/config/ac_cxx_have_strstream.m4
networkBMA/src/tclap-1.2.1/config/ac_cxx_namespaces.m4
networkBMA/src/tclap-1.2.1/config/ac_cxx_warn_effective_cxx.m4
networkBMA/src/tclap-1.2.1/config/bb_enable_doxygen.m4
networkBMA/src/tclap-1.2.1/config/config.h.in
networkBMA/src/tclap-1.2.1/config/depcomp
networkBMA/src/tclap-1.2.1/config/install-sh
networkBMA/src/tclap-1.2.1/config/missing
networkBMA/src/tclap-1.2.1/config/mkinstalldirs
networkBMA/src/tclap-1.2.1/configure
networkBMA/src/tclap-1.2.1/configure.in
networkBMA/src/tclap-1.2.1/docs
networkBMA/src/tclap-1.2.1/docs/Doxyfile.in
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networkBMA/vignettes
networkBMA/vignettes/algorithm2e.sty
networkBMA/vignettes/networkBMA.Rnw
networkBMA/vignettes/networkBMA.bib
networkBMA/vignettes/prc-update.pdf
networkBMA/vignettes/relsize.sty
networkBMA/vignettes/roc-update.pdf

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