filter_genes {BANDITS} | R Documentation

## 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 simone.tiberi@uzh.ch

### 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)

[Package BANDITS version 1.4.1 Index]