# Y2H Statistical Package

## Documentation for package `y2hStat' version 1.2.0

## User Guides and Package Vignettes

Read overview or browse directory.

## Help Pages

baitsOnly | A function that filters proteins not sampled as baits.
bpMatrix | This function generates the Bait-Prey Matrix for an experiment
collectBPStats | This function enumerates the multiplicity of bait to prey occurances.
collectIntactData | A function that parses the Intact repository for bait to prey affiliation
collectMembranePPI | A function to collect the membrane bound protein protein interactions.
createBPList | A function to create the Bait to Prey association list.
createTables | A function to create a table of the various summary statistics for the Y2H experimental derived data.
degreeStats | A function to calculate the various degree statistics on the induced y2h-data derived directed graph.
findComplexBP | A function to intersect Y2H data with protein complex composition data
genBPGraph | A function to generate the Y2H induced adjcency matrix or its corresponding graph
inNucleus | A function to determine those proteins annotated by the nucleus GO term.
intAct2Sys | A function that maps the Intact ID's to the first YEAST systematic name using the YEAST package
intActData | A data set documenting the output of collectIntactData
map2Systematic | A function that maps the Intact ID's to Yeast Systematic Names if possible
map2Systematic2 | A secondary function that maps the Intact ID's to Yeast Systematic Names if possible
membranePPI | Binary Interactions for membrane bound proteins
nucStat | A function to restrict the indexing set of bait prey adjcency matrices
ppipred | Protein-protein predictions
recipBP | A function that returns all preys which were sampled as baits that also detected non-trivial preys.
sWAC2Sys | A data set that contains the translation between Swiss Acension Codes to Gene Systematic Names
symInteraction | A function that returns symmetric bait to prey interactions from the y2h experiments.
tableList | A list of tables for the downloaded and parsed xml files from the IntAct database
y2h | A data set documenting the bait to prey associations for the IntAct repository
y2hSysGW | A Binary Interaction List for Yeast Proteins via Systematic Names