modelSLGI {SLGI} | R Documentation |
Permutation model for assessing synthetic genetic interactions within and between cellular organizational units such as multi-protein complexes.
modelSLGI(iMat, universe, interactome, type="intM", perm=50)
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. |
Interaction matrix between cellular organizational units.
N. LeMeur
data(ScISIC) data(Atong) data(SGA) model <- modelSLGI(Atong, universe= SGA, interactome=ScISIC, type="intM", perm=2)