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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Porechop 0.2.3

Porechop is a tool for finding and removing adapters from Oxford Nanopore reads.

Quick Start

Test Data


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

Input File(s)

Use the following files from the directory above as test input:

  • SRR6059708_1000000.fastq

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 these parameters within the DE app interface:
    • Set the output file name to: testdata_output.fastq
    • Leave all other parameters as default

Output File(s)

Expect testdata_output.fastq as output.

Tool Source for App

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