The applications listed here are available for use in the Discovery Environment and are documented in: Discovery Environment Manual.

Discovery Environment Applications List

The box below searches only this space.
To search the entire iPlant wiki, enter your query in the box at the upper right.






Skip to end of metadata
Go to start of metadata


 Community rating: ?????

An R script for simple gwassing. Adapted from the work of researchers at NIAB.

Quick Start

Test Data


Test data for this app are temporarily not available in the Discovery Environment.

Input File(s)

A genotype and at least one phenotype file with headers are required. A map file may be additionally provided (that is required if you wish to print a plot).

Parameters Used in App

The phenotype to associate with SNPs is the only required parameter.

The user can additionally include a phenotype as mixed effects, and choose if to create and save plot and intermediate files.

Output File(s)

The main output file will be a SNP association CSV file. There may be an association plot and intermediate tables depending on the chosen options.

Tool Source for App

  • No labels