readA: read A

In MineICA: Analysis of an ICA decomposition obtained on genomics data

Description

readA

Usage

  readA(Afile, datfile, dat, annot = TRUE)

Arguments

Afile	The file which contains the matrix of sample contributions. It must be a txt file where the separator is white space, that is one or more spaces, tabs, newlines or carriage returns
datfile	The file which contains the matrix (of dimension features x samples) based on which the matrix A was calculated
dat	The data based on which the matrix A was calculated (features x samples)
annot	TRUE (default) if the Afile contains rownames of matrix A, FALSE if the rownames has to be extracted from dat

Details

This function reads and annotates matrix A.

The matrix dat must be the one on which the matrix A was calculated. It is assumed that the number of components is lower than the number of samples, the matrix will be transposed to have dimension 'samples x components' according to this assumption. If annot is FALSE, colnames of dat are used to annotate rownames of A.

Value

This function returns a matrix of dimension samples x components with rownames filled with sample IDs.

Author(s)

Anne Biton

MineICA documentation built on Nov. 8, 2020, 5:35 p.m.