Package: apComplex 2.73.0

Denise Scholtens

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

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

Authors:Denise Scholtens <[email protected]>

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apComplex.pdf |apComplex.html
apComplex/json (API)

# Install 'apComplex' in R:
install.packages('apComplex', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • HMSPCI - High-Throughput Mass Spectromic Protein Complex Identification
  • HMSPCIgraph - High-Throughput Mass Spectromic Protein Complex Identification
  • Krogan - High-Definition Macromolecular Composition of Yeast RNA-Processing Complexes
  • MBMEcHMSPCI - HMSPCI data complex estimates
  • MBMEcKrogan - Krogan data complex estimates
  • MBMEcTAP - TAP data complex estimates
  • SBMHcHMSPCI - HMSPCI data complex estimates
  • SBMHcTAP - TAP data complex estimates
  • TAP - Tandem Affinity Purification
  • TAPgraph - Tandem Affinity Purification
  • UnRBBcHMSPCI - HMSPCI data complex estimates
  • UnRBBcTAP - TAP data complex estimates
  • apEX - Example data set for apComplex package
  • apEXG - Example data set for apComplex package
  • gavin06FilteredEstimates - AP-MS data complex estimates
  • gavinBP2006 - Tandem Affinity Purification
  • krogan06FilteredEstimates - AP-MS data complex estimates
  • kroganBPMat2006 - Tandem Affinity Purification
  • yNameTAP - TAP data complex estimates using standard gene names
  • yTAP - YTAP Complexes published Gavin, et al. (2002).

On BioConductor:apComplex-2.73.0(bioc 3.21)apComplex-2.72.0(bioc 3.20)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

immunooncologynetworkinferencemassspectrometrygraphandnetwork

3.60 score 8 scripts 494 downloads 2 mentions 5 exports 43 dependencies

Last updated 4 months agofrom:f895ff93a7. Checks:1 OK, 7 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKFeb 15 2025
R-4.5-winNOTEFeb 15 2025
R-4.5-macNOTEFeb 15 2025
R-4.5-linuxNOTEFeb 15 2025
R-4.4-winNOTEFeb 15 2025
R-4.4-macNOTEFeb 15 2025
R-4.3-winNOTEFeb 15 2025
R-4.3-macNOTEFeb 15 2025

Exports:bhmaxSubgraphfindComplexesmergeComplexesplotComplexsortComplexes

Dependencies:AnnotationDbiaskpassBHBiobaseBiocGenericsBiostringsbitbit64blobcachemclicpp11crayoncurlDBIfastmapgenericsGenomeInfoDbGenomeInfoDbDatagluegraphhttrIRangesjsonliteKEGGRESTlifecyclememoisemimeopensslorg.Sc.sgd.dbpkgconfigplogrpngR6RBGLRgraphvizrlangRSQLiteS4VectorssysUCSC.utilsvctrsXVector

apComplex

Rendered fromapComplex.Rnwusingutils::Sweaveon Feb 15 2025.

Last update: 2013-11-01
Started: 2013-11-01