This new tool is now live on the main Tool Shed:


On Tue, Feb 18, 2014 at 2:10 PM, Peter Cock <> wrote:
> Hi all,
> If anyone is interested, I've just wrapped a little Python script
> I'd prepared early for use in Galaxy for a fairly common need -
> "back translating" a protein alignment into a nucleotide alignment
> by threading the unaligned sequence.
> We're testing this locally, and barring any major issues I
> would expect to release this to the main Tool Shed in a week
> or so - but if any of you want to have a play with it now, and
> pass on feedback, please do so:
> Development repository:
> Test Tool Shed release:
> Planned Tool Shed release:
> (pending)
> This uses Biopython's AlignIO [*] module and so can handle a
> range of alignment file formats - for now I have restricted this
> to "fasta", "clustal" and "phylip" which I believe are all already
> in use on the tool shed - there is probably scope here for a
> more coordinated effort to define Galaxy datatypes in this
> area, including things like the PFAM/Stockholm format and
> strict/relaxed variants of PHYLIP.
> Regards,
> Peter
> [*]
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