get.preset.opts: Return several analysis options given an analysis preset

In pmoulos/metaseqR-local: An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms.

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")

pmoulos/metaseqR-local documentation built on May 9, 2019, 1:13 a.m.