SuperCRUNCH

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Affiliated institutions: University of Arizona

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Category: Project

Description: Welcome to the OSF project page for SuperCRUNCH.

License: GNU General Public License (GPL) 3.0

Wiki

SuperCRUNCH is a program used to create, filter and manipulate large phylogenetic data sets from GenBank and/or locally generated sequence data. SuperCRUNCH was published as: Portik, D.M., and J.J. Wiens. (2020) SuperCRUNCH: A bioinformatics toolkit for creating and manipulating supermatrices and other large phylogenetic datasets. Methods in Ecology and Evolution, In Press. A pre-print of the ab...

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Components

  • Species-Level Supermatrix: Iguania (Thorough Run)

    Data and tutorial for the Iguania-Thorough analysis.

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  • Species-Level Supermatrix: Iguania (Fast Run)

    Data and tutorial for the Iguania-Fast analysis.

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  • UCE Dataset: Genus Kaloula (Vouchered)

    Data and tutorial for the Kaloula-Vouchered analysis.

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  • UCE Dataset: Genus Kaloula (Species-Level )

    Data and tutorial for the Kaloula-Species analysis.

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  • Phylogeographic Dataset: Trachylepis (Vouchered)

    Data and instructions for the Trachylepis-Phylogeography analysis.

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  • Phylogeographic Dataset: Trachylepis (Species-Level)

    Data and instructions for the Trachylepis-Species analysis.

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  • Population-Level Dataset: Genus Callisaurus (Unvouchered)

    Data and instructions for the Callisaurus-Population analysis.

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  • Population-Level Dataset: Genus Uma (Unvouchered)

    Data and instructions for the Uma-Population analysis.

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  • Adding Outgroups to Local Data - Hyperoliidae Supermatrix

    Data and instructions for the Hyperoliid-Outgroup analysis.

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  • SuperCRUNCH vs. PYPHLAWD Comparisons

    Data and instructions for the all SuperCRUNCH vs. PyPHLAWD supermatrix comparisons for Iguania and Dipsacales.

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