match_mats: Expand kernel to match features in object and pathway matrix

In jdreyf/PANTS: Pathway analysis via network smoothing

Description

Expand kernel to match features in both object and pathway matrix, so that maintain these features in pants.

Usage

match_mats(score.mat, ker, Gmat, score.impute = 0)

Arguments

score.mat	A matrix-like object with scores from original data and possibly permutations with rows corresponding to features and columns to simulations.
ker	Laplacian kernel matrix representing the interaction network.
Gmat	Binary feature (e.g. gene) by pathway inclusion matrix, indicating which features are in which pathways.
score.impute	Value to impute missing scores. If zero, score.mat is sparser, saving computing time.

Details

There must be some overlap between the rownames of score.mat, ker, & Gmat.

Value

List with elements score.mat, ker, and Gmat after matching.

jdreyf/PANTS documentation built on July 18, 2019, 10:12 a.m.