Tools to integrate, annotate, and link phenotypes to cellular organizational units such as protein complexes and pathways.
|Author||Nolwenn Le Meur and Robert Gentleman|
|Date of publication||None|
|Maintainer||Nolwenn Le Meur <email@example.com>|
buildFDMat: Build fitness defect contingency matrix
categoryToEntrezBuilder: Return a list mapping multi-protein complexes IDs to YEAST...
CoHyperGParams-class: Class "CoHyperGParams"
CoHyperGResult-class: Class "CoHyperGResult"
complexStatus: Complex Status
densityEstimate: Observed versus Expected Ratios
deResult-class: A class for representing the result of a densityEstimate...
Dudley: List of fitness defect score generated from Dudley et al 2005
getDescr: Get formatted annotation data
getFDgene: Get fitness defect genes
Giaever: List of fitness defect score generated from Giaever et al...
graphTheory: Graph theory to test associations between two or more...
gtResult-class: A class for representing the result of a graphTheory test.
HI: Data from Deutshbauer et al. (2005)
Kastenmayer: Data from Kastenmayer et al. 2006
KEGG2SCISI: Mapping between KEGG and ScISI
Lesage: Data from Lesage et al. 2005
Osterberg: Data from Osterberg at al. 2006
overlap: Count the number of proteins shared by protein complexes
PCpheno.package: Linkage between Protein Complexes, Pathways, and Phenotypes
plot: Graphical method to represent the result of the density or...
ppiInteraction: Test the association between AP-MS data and phenotype
reduceM: Resize a matrix
SGDphenoL: Saccharomyces Genome Database list of phenotypic data
testResult-class: A virtual class for representing the result of a test.
truncName: Truncate character strings
YEASTOHNOLOG: List of ohnolog gene pairs from Byrne, K.P and Wolfe, K.H...