prunePaths {clipper} | R Documentation |
This function allows the user to chose only one representant of those paths that have more than 1-thr similarity. The best scoring path is choosen.
prunePaths(pathSummary, thr=NULL, clust=NULL, sep=";")
pathSummary |
a matrix resulting from clipper function. |
thr |
a dissimilarity threshold. NULL means no pruning. |
clust |
filename where path-cluster is saved. NULL means no cluster saved. |
sep |
the separator to split genes for similarity computation. Default = ; |
a matrix
toyEx <- matrix(c(1,1,5,3,5,2,5,3,8.2,3,2,1,0.3,0.1,2,1,"1;2;3;4;5","1;2;3", "1;2;3;4;5","1;2;3","1;2;3;4;5","1;2;3","1;2;3;4;5","1;2;3"),2,12) row.names(toyEx) <- c("1;5","1;3") toyEx prunePaths(toyEx, thr=0.1)