sortOverlaps: sorts cluster overlap structure by p-values

In raim/segmenTools: Tools for Functional Genome Exploration

sorts cluster overlap structure by p-values

Description

Sorts one dimension of a cluster overlap structure by their p-values along the sorting of the other axis. For each cluster along the pre-sorted (non-selected) axis, the most significant overlaps (p<p.min) are chosen and moved to the top of the matrix.

Usage

sortOverlaps(ovl, axis = 2, p.min = 0.05, cut = FALSE, srt, symmetric = "no")

Arguments

ovl	a ‘clusterOverlaps’ object returned by clusterCluster
axis	axis to sort (2 for y-axis/rows, 1 for x-axis/columns)
p.min	significance cutoff during sorting
cut	remove all overlaps without any p<p.min
srt	sorting vector for rows, if this is passed the significance sorting is skipped
symmetric	indicate whether the overlap matrix is symmetric with symmetric="upper" or symmetric="lower"

raim/segmenTools documentation built on March 20, 2024, 6:23 a.m.