downsample.counts {metaseqR} | R Documentation

## Downsample read counts

### Description

This function downsamples the library sizes of a read counts table to the lowest library size, according to the methdology used in (Soneson and Delorenzi, BMC Bioinformatics, 2013).

### Usage

        downsample.counts(counts,seed=42)

### Arguments

`counts` | the read counts table which is subjected to downsampling.
`seed` | random seed for reproducible downsampling.

### Value

The downsampled counts matrix.

### Author(s)

Panagiotis Moulos

### Examples

    ## Dowload locally the file "bottomly_count_table.txt" from
    ## the ReCount database
    #download.file(paste("http://bowtie-bio.sourceforge.net/",
    #    "recount/countTables/bottomly_count_table.txt",sep=""),
    #    destfile="~/bottomly_count_table.txt")
    #M <- as.matrix(read.delim("~/bottomly_count_table.txt",row.names=1))
    #D <- downsample.counts(M)

[Package metaseqR version 1.24.0 Index]