CONFINED: Perform the CONFINED algorithm

Description Usage Arguments Value

Description

Generates components that capture sources of variability that are shared between two datasets. See https://github.com/cozygene/CONFINED for more info.

Usage

1
CONFINED(X1, X2, t, k, thresh = 0.95, outfile = "", saveOP = TRUE)

Arguments

X1

Input matrices. m by n_1 matrix. Must have the same number of rows as X2

X2

Input matrices. m by n_2 matrix. Must have the same number of rows as X1

t

Number of rows (e.g. methylation sites) to use

k

Number of CONFINED components to produce (up to min{n_1, n_2 })

thresh

Correlation threshold for selecting the number of canonical variables to use when generating the low-rank approximations in the feature selection step

outfile

Prefix for saving the results

saveOP

Boolean flag for saving the components/feature ranks to a txt file

Value

X1comps - CONFINED components for X1. These capture shared variability between X1 and X2

X2comps - CONFINED components for X2. These capture shared variability between X1 and X2


cozygene/CONFINED documentation built on June 17, 2019, 5:13 p.m.