genefilter_pofa_counts: Filter low-count genes from a data set using genefilter's...

In elsayed-lab/hpgltools: A pile of (hopefully) useful R functions

Filter low-count genes from a data set using genefilter's pOverA().

Description

I keep thinking this function is pofa... oh well. Of the various tools in genefilter, this one to me is the most intuitive. Take the ratio of counts/samples and make sure it is >= a score.

Usage

genefilter_pofa_counts(count_table, p = 0.01, A = 100)

Arguments

count_table	Input data frame of counts by sample.
p	Minimum proportion of each gene's counts/sample to be greater than a minimum(A).
A	Minimum number of counts in the above proportion.

Value

Dataframe of counts without the low-count genes.

See Also

[genefilter::pOverA()]

Examples

## Not run: 
 filtered_table = genefilter_pofa_counts(count_table)

## End(Not run)

elsayed-lab/hpgltools documentation built on May 9, 2024, 5:02 a.m.