apComplex: Estimate protein complex membership using AP-MS protein data
Version 2.42.0

Functions to estimate a bipartite graph of protein complex membership using AP-MS data.

Browse man pages Browse package API and functions Browse package files

AuthorDenise Scholtens <dscholtens@northwestern.edu>
Bioconductor views GraphAndNetwork MassSpectrometry NetworkInference
Date of publicationNone
MaintainerDenise Scholtens <dscholtens@northwestern.edu>
LicenseLGPL
Version2.42.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("apComplex")

Man pages

apEX: Example data set for apComplex package
bhmaxSubgraph: Find maximal BH-complete subgraph
FilteredEstimates: AP-MS data complex estimates
findComplexes: Estimate a Protein Complex Membership Graph (PCMG) using...
gavinBP2006: Tandem Affinity Purification (TAP) Data from Gavin et al....
HMSPCI: High-Throughput Mass Spectromic Protein Complex...
Krogan: High-Definition Macromolecular Composition of Yeast...
kroganBPMat2006: Tandem Affinity Purification (TAP) Data from Krogan et al....
LCjoin: Computes change in LxC measure
MBMEcHMSPCI: HMSPCI data complex estimates
MBMEcKrogan: Krogan data complex estimates
MBMEcTAP: TAP data complex estimates
mergeComplexes: Iteratively combine columns in initial PCMG estimate
plotComplex: Render complex estimates
sortComplexes: Sort complex estimates
TAP: Tandem Affinity Purification (TAP) Data from Gavin et al....
yNameTAP: TAP data complex estimates using standard gene names
yTAP: yTAP Complexes published Gavin, et al. (2002).

Functions

HMSPCI Man page
HMSPCIgraph Man page
Krogan Man page
LCjoin Man page
LCjoinLchange Man page Source code
LCjoinadjBin Man page Source code
LCjoinfisher Man page Source code
MBMEcHMSPCI Man page
MBMEcKrogan Man page
MBMEcTAP Man page
SBMHcHMSPCI Man page
SBMHcTAP Man page
TAP Man page
TAPgraph Man page
UnRBBcHMSPCI Man page
UnRBBcTAP Man page
adjBinFUN Man page Source code
apEX Man page
apEXG Man page
bhmaxSubgraph Man page Source code
findComplexes Man page Source code
fisherFUN Man page Source code
gavin06FilteredEstimates Man page
gavinBP2006 Man page
gavinBP2006graph Man page
krogan06FilteredEstimates Man page
kroganBPMat2006 Man page
mergeComplexes Man page Source code
plotComplex Man page Source code
sortComplexes Man page Source code
yNameTAP Man page
yTAP Man page

Files

DESCRIPTION
NAMESPACE
R
R/LCjoin.R
R/adjBinFUN.R
R/bhmaxSubgraph.R
R/findComplexes.R
R/fisherFUN.R
R/mergeComplexes.R
R/plotComplex.R
R/sortComplexes.R
build
build/vignette.rds
data
data/HMSPCI.rda
data/HMSPCIgraph.rda
data/Krogan.rda
data/MBMEcHMSPCI.rda
data/MBMEcKrogan.rda
data/MBMEcTAP.rda
data/SBMHcHMSPCI.rda
data/SBMHcTAP.rda
data/TAP.rda
data/TAPgraph.rda
data/UnRBBcHMSPCI.rda
data/UnRBBcTAP.rda
data/apEX.rda
data/apEXG.rda
data/gavin06FilteredEstimates.rda
data/gavinBP2006.rda
data/krogan06FilteredEstimates.rda
data/kroganBPMat2006.rda
data/yNameTAP.rda
data/yTAP.rda
inst
inst/doc
inst/doc/apComplex.R
inst/doc/apComplex.Rnw
inst/doc/apComplex.pdf
man
man/FilteredEstimates.Rd
man/HMSPCI.Rd
man/Krogan.Rd
man/LCjoin.Rd
man/MBMEcHMSPCI.Rd
man/MBMEcKrogan.Rd
man/MBMEcTAP.Rd
man/TAP.Rd
man/apEX.Rd
man/bhmaxSubgraph.Rd
man/findComplexes.Rd
man/gavinBP2006.Rd
man/kroganBPMat2006.Rd
man/mergeComplexes.Rd
man/plotComplex.Rd
man/sortComplexes.Rd
man/yNameTAP.Rd
man/yTAP.Rd
vignettes
vignettes/apComplex.Rnw
apComplex documentation built on May 20, 2017, 9:44 p.m.