Hi Scott,
it seems that devteam's picard repository in the Tool Shed ( https://toolshed.g2.bx.psu.edu/view/devteam/picard/ ) does not have a tool for this, but 4 tools include an automatic conversion of a FASTA dataset using CreateSequenceDictionary: BedToIntervalList, MergeBamAlignment, ReorderSam and ValidateSamFile.

If you think this is not the best approach, please open an issue at https://github.com/galaxyproject/tools-devteam

Chees,
Nicola

On 01/02/16 14:02, Scott Szakonyi wrote:

Hello all,

I have some biologists here at Notre Dame who use the Picard Tools CreateSequenceDictionary application as part of their workflow. I've tried to locate it in the toolshed but all the Picard Tools versions that are available don't seem to include it. Does anyone know where I might find this tool to add to Galaxy?

Thanks!

--

Scott B. Szakonyi

Research Programmer

Center for Research Computing
107 Information Technology Center
Notre Dame, IN 46556
http://crc.nd.edu

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