Why aren't Saté & Pasta listed in the "External Tools" aligners?

[hhg7]

I'm confused by the available aligners with the Pasta GUI, why isn't Saté listed as a possible aligner? Also https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4424971/ seems to indicate that PASTA is another aligner itself, instead of a tool for running other aligners? I'm confused because I see MAFFT, GINSI, etc., but not Saté and Pasta

[smirarab]

Aligners are the aligners that can be used *within* PASTA. PASTA cannot be used within PASTA, neither can SATe. The paper makes it clear that you need a base aligner.

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On Tue, May 5, 2020 at 10:45 AM David E. Condon ***@***.***> wrote: I'm confused by the available aligners with the Pasta GUI, why isn't Saté listed as a possible aligner? Also https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4424971/ seems to indicate that PASTA is another aligner itself, instead of a tool for running other aligners? I'm confused because I see MAFFT, GINSI, etc., but not Saté and Pasta — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#52>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAGJXOAEFAMXNC346XYG5DLRQBGDXANCNFSM4MZYY43A> .

-- Siavash Mirarab