downsizeGC: downsizeGC

In eprifti/momr: Mining Metaomics Data (MetaOMineR)

downsizeGC

Description

This function takes a matrix with raw reads counts and computes the number of genes at a given downsizing level a given number of times.

Usage

downsizeGC(data, level = 1.1e+07, repetitions = 30, silent = FALSE)

Arguments

data	: raw read count matrix with gene_ids as rownames
level	: default 11e6, the downsizing level number of reads to be selected randomly.
repetitions	: default 30, the number of times the drawing is performed. Usually 30 or 10 to speed things out
silent	: default is FALSE prints the status of downsizing

Details

downsizeGC

Value

a matrix containing in rows a vector for each repetition and in columns the number of downsized genes for each sample

Note

if the downsizing level is higher than the number of reads for a given sample than the result will be NA

Author(s)

Edi Prifti & Emmanuelle Le Chatelier

eprifti/momr documentation built on Sept. 27, 2022, 3:36 a.m.