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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Samtools 1.7 BAM to SAM 

Converts a BAM file (binary) to a SAM file (readable text).

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 -> BamtoSam

Input File(s)

Use test.bam from the directory above as test input.

Parameters Used in App

Set the output file name to test.sam. Leave other settings default.

Output File(s)

Expect an output file named test.sam with the test data example above.

Tool Source for App

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