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

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

Author
Denise Scholtens <dscholtens@northwestern.edu>
Date of publication
None
Maintainer
Denise Scholtens <dscholtens@northwestern.edu>
License
LGPL
Version
2.40.0

View on Bioconductor

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).

Files in this package

apComplex/DESCRIPTION
apComplex/NAMESPACE
apComplex/R
apComplex/R/LCjoin.R
apComplex/R/adjBinFUN.R
apComplex/R/bhmaxSubgraph.R
apComplex/R/findComplexes.R
apComplex/R/fisherFUN.R
apComplex/R/mergeComplexes.R
apComplex/R/plotComplex.R
apComplex/R/sortComplexes.R
apComplex/build
apComplex/build/vignette.rds
apComplex/data
apComplex/data/HMSPCI.rda
apComplex/data/HMSPCIgraph.rda
apComplex/data/Krogan.rda
apComplex/data/MBMEcHMSPCI.rda
apComplex/data/MBMEcKrogan.rda
apComplex/data/MBMEcTAP.rda
apComplex/data/SBMHcHMSPCI.rda
apComplex/data/SBMHcTAP.rda
apComplex/data/TAP.rda
apComplex/data/TAPgraph.rda
apComplex/data/UnRBBcHMSPCI.rda
apComplex/data/UnRBBcTAP.rda
apComplex/data/apEX.rda
apComplex/data/apEXG.rda
apComplex/data/gavin06FilteredEstimates.rda
apComplex/data/gavinBP2006.rda
apComplex/data/krogan06FilteredEstimates.rda
apComplex/data/kroganBPMat2006.rda
apComplex/data/yNameTAP.rda
apComplex/data/yTAP.rda
apComplex/inst
apComplex/inst/doc
apComplex/inst/doc/apComplex.R
apComplex/inst/doc/apComplex.Rnw
apComplex/inst/doc/apComplex.pdf
apComplex/man
apComplex/man/FilteredEstimates.Rd
apComplex/man/HMSPCI.Rd
apComplex/man/Krogan.Rd
apComplex/man/LCjoin.Rd
apComplex/man/MBMEcHMSPCI.Rd
apComplex/man/MBMEcKrogan.Rd
apComplex/man/MBMEcTAP.Rd
apComplex/man/TAP.Rd
apComplex/man/apEX.Rd
apComplex/man/bhmaxSubgraph.Rd
apComplex/man/findComplexes.Rd
apComplex/man/gavinBP2006.Rd
apComplex/man/kroganBPMat2006.Rd
apComplex/man/mergeComplexes.Rd
apComplex/man/plotComplex.Rd
apComplex/man/sortComplexes.Rd
apComplex/man/yNameTAP.Rd
apComplex/man/yTAP.Rd
apComplex/vignettes
apComplex/vignettes/apComplex.Rnw