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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Prinseq graph complete workflow

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Complete workflow to create graphs relating to the quality of reads in a fastq file. Similar to FastQC

Quick Start

Test Data

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Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data ->  prinseq_graph

Input File(s)

Use

hy5_rep1.fastq from the directory above as test input.

Parameters Used in App

When the app is run in the Discovery Environment, use the following parameters with the above input file(s) to get the output provided in the next section below.

Use the default parameters.

Output File(s)

Expect an html file as output. For the test case, the output file you will find in the example_data directory is named hy5graphtest.html.

Tool Source for App

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