covThreshold {InPAS} | R Documentation

## calculate the cutoff threshold of coverage

### Description

calculate the cutoff threshold of coverage for long form and short form

### Usage

    covThreshold(coverage, genome, txdb, utr3,
                             chr="chr1", hugeData, groupList)

### Arguments

`coverage` | coverage for each sample, output of coverageFromBedGraph
`genome` | an object of BSgenome
`txdb` | an object of TxDb
`utr3` | output of utr3Annotation
`chr` | chromosome to be used for calculation, default is "chr1"
`hugeData` | is this dataset consume too much memory? if it is TRUE, the coverage will be saved into tempfiles.
`groupList` | group list of tag names

### Value

a numeric vector

### Author(s)

Jianhong Ou

### See Also

`CPsite_estimation`

[Package InPAS version 1.18.0 Index]