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

Discovery Environment Applications List

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GWASSER

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

Quick Start

Test Data

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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

https://github.com/cyverseuk/GWASSER

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