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GFFRead: Convert GFF to GTF

Uses Cufflinks gffread to convert GFF to GTF. Loads of options.

Quick Start

To use GFFRead: Convert GFF to GTF, upload your data in GFF format.
Resources: http://cufflinks.cbcb.umd.edu/gff.html

Test Data

Test data for this app appears directly in the Discovery Environment in the Data window under _Community Data -> iplantcollaborative -> example_data ->_ {_}gffread_convert_gff_to_gtf

Input File(s)

Use chloroplast_Arabidopsis_thaliana_(thale_cress)_dsgid7046.gff as 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, no further configuration needed.

Output File(s)

Expect a GTF file 'gffread_filtered.gtf' as output. An example of this is in the above directory, called gffread.gtf

Tool Source for App

http://cufflinks.cbcb.umd.edu/downloads/cufflinks-1.1.0.tar.gz

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GFFRead Convert GFF to GTF (archived)