filter_genes: Filter lowly abundant genes.

In SimoneTiberi/BANDITS: BANDITS: Bayesian ANalysis of DIfferenTial Splicing

Filter lowly abundant genes.

Description

filter_genes filters genes, according to the overall number of counts (across all samples) compatible with the gene. The filtering also applies to groups of genes with reads/fragments compatible with >1 gene; in this case, the number of counts considered is across all genes in the group.

Usage

filter_genes(BANDITS_data, min_counts_per_gene = 10)

Arguments

BANDITS_data	a 'BANDITS_data' object, created with the create_data function.
min_counts_per_gene	the minimum number of counts compatible with a gene (across all samples).

Details

The function inputs a 'BANDITS_data' object, and returns again a 'BANDITS_data' object after filtering genes and groups of genes.

Value

A BANDITS_data object.

Author(s)

Simone Tiberi [e-mail]

See Also

filter_transcripts, create_data, BANDITS_data

Examples

# load the pre-computed data:
data("input_data", package = "BANDITS")
input_data

# Filter lowly abundant genes:
input_data = filter_genes(input_data, min_counts_per_gene = 20)

SimoneTiberi/BANDITS documentation built on Nov. 15, 2023, 2:35 p.m.