bpMatrix {y2hStat} | R Documentation

## This function generates the Bait-Prey Matrix for an experiment

### Description

This function takes in experimental data and generates the bait to prey adjacency matrix.

### Usage

    bpMatrix(y2h, symMat = TRUE, homodimer = TRUE)

### Arguments

`y2h` | A three tiered list. Names of the second tier corresponds to ID of experiment. Names of the third tier should be the bait proteins. The entries of the third tier are character vectors of proteins detected as prey
`symMat` | A logical, if TRUE, the matrix will be square with all the proteins documented in the experiment indexing both the row and column; if FALSE, only the baits index the rows, preys the columns.
`homodimer` | A logical. If true, the matrix will record the presence of homodimers; if FALSE, all homodimers data will be deleted.

### Details

It is important to note that the weight of each directed edge is recorded by the number of instances bait b finds prey p.

### Value

An adjacency matrix with weighting. The rows are indexed by those proteins sampled as baits (if symMat is true, only those rows with non-trivial row sums were sampled as baits) and the colunms are indexed by proteins detected as baits (et cetera).

### Author(s)

T Chiang

### Examples

    data(y2hSysGW)
    eg <- y2hSysGW[3]
    bpMatrix(eg)

[Package y2hStat version 1.2.0 Index]