get.preset.opts {metaseqR} | R Documentation

## Return several analysis options given an analysis preset

### Description

This is a helper function which returns a set of metaseqr pipeline options, grouped together according to a preset keyword. It is intended mostly for internal use.

### Usage

        get.preset.opts(preset, org)

### Arguments

`preset` | preset can be one of `"all.basic"`, `"all.normal"`, `"all.full"`, `"medium.basic"`, `"medium.normal"`,
`org` | one of the supported organisms. See `metaseqr` main help page. `"medium.full"`, `"strict.basic"`, `"strict.normal"` or `"strict.full"`, each of which control the strictness of the analysis and the amount of data to be exported. For an explanation of the presets, see the main `metaseqr` help page.

### Value

A named list with names `exon.filters`, `gene.filters`, `pcut`, `export.what`, `export.scale`, `export.values` and `export.stats`, each of which correspond to an element of the metaseqr pipeline.

### Author(s)

Panagiotis Moulos

### Examples

    strict.preset <- get.preset.opts("strict.basic","mm9")

[Package metaseqR version 1.30.0 Index]