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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Oases 0.2.08 

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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 -> oases

Input File(s)

Use the entire velvetg output directory (in tar.gz format) as the input (VelvetG_Out.tar.gz).

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.

The insert size for short paired reads is set to 300, and the SD for these is 60. Set the minimum transcript output length to 200.

Output File(s)

Expect  Oases_Out.tar.gz and transcripts.fa as output.

Tool Source for App

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