Newbler 2.6.0

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Newbler runs on a 32 core node on the Stampede server at TACC.

Quick Start

To use Newbler 2.6.0, import your data in .sff or fasta format.
Resources: http://contig.wordpress.com/2010/06/10/running-newbler-de-novo-assembly/

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 -> Newbler-2.6.0

Input File(s)

Use FFGLB5S04.sff from the directory above as test input.

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.

Default parameters only, with a 1 hour run time.

Output File(s)

Expect a folder named NewblerOutput with many output files. For the test case, the output file you will find in the example_data directory is named 454AllContigs.fna.

Tool Source for App

http://454.com/products/analysis-software/index.asp