Materials for the virtual Species Delimitation workshop, held August 16-19, 2021
A note that while we recommend using conda to install software in order to minimize dependency conflicts, it is not necessary, and participants should do whatever works best for them and their systems!
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iBPP installation instructions here: https://github.com/cecileane/iBPP/wiki/Installation-of-iBPP (compilation necessary with gcc v. 5.x)
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delimitR installation guide here: https://github.com/meganlsmith/delimitR (we recommend using conda to manage dependencies, those instructions are here: https://github.com/SmithsonianWorkshops/Species_Delimitation_2021_08/blob/main/delimitR_conda_install.md)
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Haploweb is available here: https://eeg-ebe.github.io/HaplowebMaker/ (web interface, no installation necessary)
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Machine Learning tutorial install instructions are available here: https://github.com/SmithsonianWorkshops/Species_Delimitation_2021_08/blob/main/ML_tutorial_conda_install.md)
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mPTP installation guide here: https://github.com/Pas-Kapli/mptp ((we recommend using conda to manage dependencies, those instructions are here: https://github.com/SmithsonianWorkshops/Species_Delimitation_2021_08/blob/main/mPTP_conda_install.md)
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PHRAPL installation guide here: https://phrapl.github.io/Content/1.Installation.html (we recommend using conda to manage dependencies, those instructions are here: https://github.com/SmithsonianWorkshops/Species_Delimitation_2021_08/blob/main/PHRAPL_conda_install.md)
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SNAPPER requires Beast2 (available at http://www.beast2.org, which doesn't require comiplation)
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Tracer and FigTree will also se used in the SNAPPER tutorial, these are GUI programs and available here: https://github.com/beast-dev/tracer/releases/tag/v1.7.2 and https://github.com/rambaut/figtree/releases)