Description Usage Arguments Value Author(s) Examples

View source: R/interaction-methods.R

Summarize the genetic interactions within one cellular organizational unit or between 2 cellular organizational units.

1 | ```
test2Interact(iMat, tMat, interactome)
``` |

`iMat` |
Genetic interaction matrix. Each entry has value 0 or 1, representing positive or negative interaction of corresponding pairs of row and column, respectively. |

`tMat` |
Adjacency matrix of tested object. Each entry has value 0 or 1, representing the fact that the corresponding pairs of row and column have been tested for interaction or not. |

`interactome` |
Adjacency matrix where row are gene names and columns are cellular organizational units names. Each entry has value 0 or 1, for absence or presence of a gene in the complex. |

the return value is a data.frame with 6 columns.

`unit1, unit2` |
cellular organizational units tested and interacting |

`tested` |
Number of interactions tested between unit1 and unit2 |

`interact` |
Number of interactions found between unit1 and unit2 |

`sizeC1, sizeC2` |
Number of genes in unit1 and unit2 |

N. LeMeur

1 2 3 4 5 6 7 8 9 10 11 12 13 14 | ```
set.seed(123)
##Create the interactome
cInt <- sample(c(0,1),30, TRUE)
interactome <- matrix(cInt, nrow=6, ncol=5,dimnames=list(letters[2:7],LETTERS[1:5]))
## Create cellular organizational units interaction matrix
gInt <- sample(c(1:8), 25, TRUE)
gInt <- matrix(gInt, nrow=5, ncol=5, dimnames=list(LETTERS[1:5],LETTERS[1:5]))
## All interactome tested
gTest <- matrix(sample(c(0:3), 25, TRUE), nrow=5, ncol=5)
gTested <- gInt+gTest
val <- test2Interact(iMat=gInt, tMat=gTested, interactome=interactome)
``` |

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