.getSummaryBam {UMI4Cats} | R Documentation

## Summarize BAM file

### Description

Get summary of interesting bam statistics

### Usage

    .getSummaryBam(bam_file, mapped = TRUE, secondary = FALSE)

### Arguments

`bam_file` | Path for the bam file.
`mapped` | Logical indicating whether to extract mapped reads.
`secondary` | Logical indicating whether to extract secondary aligned reads.

### Value

Returns a numeric containing the number of reads in `bam_file` that has the specified `mapped` and `secondary` status.

[Package UMI4Cats version 1.2.1 Index]