ma.pipeline: Microarray pipeline

In fboulnois/made: Microarray Analysis of Differential Expression

Description

Run the full microarray pipeline.

Usage

ma.pipeline(config)

Arguments

config

Character string consisting of the path to the configuration file generated using the write.yaml.config function or parsed configuration list associated with a microarray experiment.

Details

Runs the entire microarray pipeline according to the options set in the config. The pipeline consists of quality assessment, normalization, summarization, and creation of the final report.

Value

A character string consisting of the path to the microarray report.

See Also

write.yaml.config to generate the configuration file, ma.normalize to perform normalization, ma.summarize to perform gene level summarization, and write.report to generate the final report including the quality assessment.

Examples

if(require(madeData))
{
  config <- system.file("extdata", "config.yaml", package = "madeData")
  ma.pipeline(config)
}

fboulnois/made documentation built on May 16, 2019, 12:01 p.m.