get_regionCov {InPAS} | R Documentation

## Get coverage for 3' UTR and last CDS regions on a single chromosome

### Description

Get coverage for 3' UTR and last CDS regions on a single chromosome

### Usage

    get_regionCov(chr.utr3, sqlite_db, outdir, BPPARAM = NULL, phmm = FALSE)

### Arguments

`chr.utr3` | one element of an output of `extract_UTR3Anno()`
`sqlite_db` | A path to the SQLite database for InPAS, i.e. the output of `setup_sqlitedb()`.
`outdir` | A path to a folder for storing coverage data of 3' UTRs and last CDSs on a given chromosome/scaffold. If it doesn't exist, it will be created.
`BPPARAM` | an optional BiocParallel::BiocParallelParam instance determining the parallel back-end to be used during evaluation, or a list of BiocParallelParam instances, to be applied in sequence for nested calls to bplapply. It can be set to NULL or bpparam()
`phmm` | A logical(1) vector, indicating whether data should be prepared for singleSample analysis? By default, FALSE

### Value

coverage view in GRanges

### Author(s)

Jianhong Ou, Haibo Liu

[Package InPAS version 2.2.0 Index]