basic_signature: basic_signature

In fossbert/binilib: Carlo's little helper

Description

This function prepares a gene expression matrix before metaVIPER. After rank normalization of each sample, the row medians are subtracted and every column is divided by the row median absolute deviation (MAD). It will filter out genes with a mad of zero.

Usage

basic_signature(eset, tpm = FALSE, ...)

Arguments

eset	Numeric matrix of gene expression (raw counts or pre-processed)
tpm	logical, whether tpm normalization should be carried out (use if eset is in raw counts)
...	further arguments to tpm function

Value

Numeric matrix with a basic signature for each sample

fossbert/binilib documentation built on April 23, 2021, 10:31 p.m.