# A package that contains the bait to prey directed graphs for protein-protein interactions.

## Documentation for package ‘ppiData’ version 0.1.16

- DESCRIPTION file.
- Overview of user guides and package vignettes; browse directory.

## Help Pages

bpExperimentNames | A Character Vector Containing the Names of the 13 Graph Objects Stored in this Data Package
Cagney2001BPGraph | A directed Graph for the Y2H Bait to Prey Interaction data detected by Cagney et al. 2001.
collectIntactPPIData | A function that parses the Intact repository for bait to prey affiliation
createBPList | A function to create the Bait to Prey association list.
Gavin2002BPGraph | A directed Graph for the AP-MS Bait to Prey Interaction data detected by Gavin et al. 2002.
Gavin2006BPGraph | A directed Graph for the AP-MS Bait to Prey Interaction data detected by Gavin et al. 2006.
Hazbun2003BPGraph | A directed Graph for the Y2H Bait to Prey Interaction data detected by Hazbun et al. 2003.
Ho2002BPGraph | A directed Graph for the AP-MS Bait to Prey Interaction data detected by Ho et al. 2002.
intAct2Sys | A function that maps the Intact ID's to the first org.Sc.sgd systematic name using the org.Sc.sgd package
intActPPIData | A data set documenting the output of collectIntactPPIData
Ito2001BPGraph | A directed Graph for the Y2H Bait to Prey Interaction data detected by Ito et al. 2001.
ItoCore2001BPGraph | A directed Graph for the Y2H Bait to Prey Interaction data detected by Ito et al. 2001.
ItoFull2001BPGraph | A directed Graph for the Y2H Bait to Prey Interaction data detected by Ito et al. 2001.
Krogan2004BPGraph | A directed Graph for the AP-MS Bait to Prey Interaction data detected by Krogan et al. 2004.
Krogan2006BPGraph | A directed Graph for the AP-MS Bait to Prey Interaction data detected by Krogan et al. 2006.
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
ppipred | Protein-protein predictions
stochasticBaits | Lists of viable baits in each bait to prey dataset which are conjectured not to be systematically biased.
sWAC2Sys | A data set that contains the translation between Swiss accension codes to Gene Systematic Names
tableList | A list of tables for the downloaded and parsed xml files from the IntAct database
Tong2002BPGraph | A directed Graph for the Y2H Bait to Prey Interaction data detected by Tong et al. 2002.
twTableAPMS | A table to look at the permutation statistics of pairs of Y2H experiment.
twTableY2H | A table to look at the permutation statistics of pairs of Y2H experiment.
Uetz2000BPGraph1 | A directed Graph for the Y2H Bait to Prey Interaction data detected by Uetz et al. 2000.
Uetz2000BPGraph2 | A directed Graph for the Y2H Bait to Prey Interaction data detected by Uetz et al. 2000.
viableBaits | Lists of viable prey or baits in each bait to prey dataset
viablePrey | Lists of viable prey or baits in each bait to prey dataset
y2h | A data set documenting the bait to prey associations for the y2h empirical data-sets as found within the IntAct repository.
y2hSysGW | A data object documenting the bait to prey associations for the y2h empirical data-sets with two restrictions.
Zhao2005BPGraph | A directed Graph for the Y2H Bait to Prey Interaction data detected by Zhao et al. 2005.