Asko_start: Asko_start

In askomics/askoR: Differential Expression Analysis using 'edgeR'

Asko_start

Description

Initialize and Scans parameters from command line in a python-like style:

• declare options, their flags, types, default values and help messages,

• read the arguments passed to the R script and parse them according to what has been declared in step 1.

Parameters can be called by their names as declared in opt object.

Usage

Asko_start()

Value

List of parameters that contains all arguments.

Note

All parameters were describe in Wiki section: https://github.com/askomics/askoR/wiki

Examples

   parameters <- Asko_start()

   # set inputs files
   parameters$fileofcount = "CountsMatrix.txt"
   parameters$sample_file = "Samples_CountsMatrix.txt"
   parameters$contrast_file = "Contrasts.txt"

   # Set parameters threshold cpm
   parameters$threshold_cpm <- 0.5

   # And other ... askoR has many parameters.

askomics/askoR documentation built on Jan. 17, 2025, 6:23 p.m.