modelSLGI: Permutation model for assessing synthetic genetic...

In SLGI: Synthetic Lethal Genetic Interaction

Description

Permutation model for assessing synthetic genetic interactions within and between cellular organizational units such as multi-protein complexes.

Usage

modelSLGI(iMat, universe, interactome,  type="intM", perm=50)

Arguments

iMat	Adjacency matrix reporting genetic interactions. Each entry has value 0 or 1, representing positive or negative interaction of corresponding pairs of row and column.
universe	character vector of the names of the tested genes, e.g., names of the genes on the synthetic genetic array (SGA) used by Tong et al.
interactome	Adjacency matrix where row are genes and columns are cellular organizational units. Each entry has value 0 or 1, for absence or presence of a gene in a complex.
type	Character vector of value "intM" (Default) or "interactome" to either perform the test based on to the genetic interaction matrix or the interactome, respectively.
perm	Number of permutations to apply. Default is 50.

Value

Interaction matrix between cellular organizational units.

Author(s)

N. LeMeur

See Also

getInteraction

Examples

 data(ScISIC)
 data(Atong)
 data(SGA)
 model <-  modelSLGI(Atong, universe= SGA, interactome=ScISIC,
type="intM", perm=2)
 

SLGI documentation built on Nov. 8, 2020, 11 p.m.