RnaSeqParam class {easyRNASeq} | R Documentation

## Class "RnaSeqParam"

### Description

A class holding all the necessary parameters to process a bam file issued from an RNA-Seq experiment together with the related annotation to compute a count-table using the `simpleRNASeq function`. The precision slot is used to determine the count unit:

- readsdefault. The standard `summarizeOverlaps-methods` function is used to extract the read counts

- bpThe `easyRNASeq summarization functions` are used to extract the read covered bp counts

### Objects from the Class

Objects can be created by calls of the form `new("RnaSeqParam", ...)` or using the RnaSeqParam constructor.

### Author(s)

Nicolas Delhomme

### See Also

- `RnaSeqParam constructor`

- `RnaSeqParam accessors`

- `simpleRNASeq function`

- `AnnotParam`

- `AnnotParam constructor`

- `BamParam`

- `BamParam constructor`

- `summarizeOverlaps-methods`

- `easyRNASeq summarization functions`

### Examples

    showClass("RnaSeqParam")

[Package easyRNASeq version 2.28.0 Index]