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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Convert bwt to arf


This app takes a bwt file, the default output format from Bowtie (not Bowtie2), and converts it to arf format for use with miRDeep2. 

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 -> miRDeep2

Input File(s)


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.

There are no parameters to be set in this app. Set the output filename to reads_collasped_vs_genome.arf.

Output File(s)

Expect a file named exactly as you name it as output. For the test case, the output file you will find in the example_data directory is named reads_collasped_vs_genome.arf

Tool Source for App

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