On Oct 29, 2012, at 3:20 PM, Todd Oakley <todd.oak...@lifesci.ucsb.edu> wrote:
> Ann,
> Also to your request "I'd appreciate any input about MrBayes or a similar
> kind of tool."
>
> We are developing a suite of tools for phylogenetics in Galaxy. We are
> calling the tool suite Osiris.
>
> We are currently adding the full tool suite to Bit Bucket:
> https://bitbucket.org/repo/all?name=osiris_phylogenetics
>
> and many tools are on the tool shed under a repository called
> ucsb_phylogenetics.
>
> We are describing some of the tools here:
> http://osiris-phylogenetics.blogspot.com/
>
>
>
> We are in rather active development right now, but the RAxML tools have been
> used rather extensively, and allow some interactive choices (model choice,
> bootstrap reps, DNA v Protein, etc). We also have a tool for BEAST (very
> simple, just passes the formatted xml file to run the program through
> Galaxy). Another phylogenetic tree estimation tool on the tool shed (not
> ours) exists for GARLI.
>
> We plan to develop a tool for MrBayes, as well, but perhaps we will not have
> to anymore!
>
>
> Best wishes,
>
> Todd Oakley
This is an interesting project. I'm glad to see more people working on
phylogenetics related wrappers and workflows. I wonder if we could get a
"Phylogenetics" category added to the main Galaxy Toolshed, so we could put all
the relevant wrappers in there to make them easier to find considering the
apparent duplication of efforts.
Regards,
Alex
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