Hi Mathew, I have a mapper (bismark) and my own tools (+wrapper) and was able to do an entire analysis with it. The bismark wrapper is in the toolshed. The other tools can be found in my github repository. https://github.com/bgruening galaxytools and methtools Hope that helps, Bjoern

Do we have any tool which can be used for analyzing and QC check for bisulfite sequencing. I have FASTq files.

Thanks

Mathew ___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:

http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists, please use the interface at:

http://lists.bx.psu.edu/

To search Galaxy mailing lists use the unified search at:

http://galaxyproject.org/search/mailinglists/