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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Best Hit for Blat Output

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This app uses tools that accompany blat, pslReps and pslSort.
It chooses the better alignments from the psl output file from Blat.

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 -> Best_Hit_for_Blat_Output

Input File(s)

Use neo.psl from the directory above as test input.

Parameters Used in App

  • Default parameters only, but change the output name for the psl to neo_best.psl.

 

Output File(s)

Expect a psl as output. For the test case, the output file you will find in the example_data directory is named neo_best.psl.

Tool Source for App

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