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1. MrBayes MrBayes Public

   HTCondor files to run MrBayes on all files in a directory

   Python

2. PhylogeneticFileConversions PhylogeneticFileConversions Public

   Scripts used to convert between phylogenetic file types

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3. BUCKyTools BUCKyTools Public

   Various scripts to use in BUCKy analysis

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4. QuartetAnalysis QuartetAnalysis Public

   QA examines four clades for signs of inter-clade hybridization

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5. RAxML RAxML Public

   HTCondor files to run RAxML on all files in a directory

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6. cpAssembler cpAssembler Public

   Software to assemble plastomes from Illumina reads