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


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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