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Run cuffmerge on all gtf files in input directories.
Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data -> htprocess1
Use the directory named HTProcess_Cufflinks_control and the directory named HTProcess_Cufflinks_dehydrated from the HTProcess_Cufflinks directory, which is in the directory listed 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, no further configuration needed.
Expect a directory named HTProcess_Cuffmerge, and a file named merged_with_ref_ids.gtf as output. For the test case, the output directory and file are in the HTProcess_cuffmerge directory in the directory listed above for test data.