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  "Title": "Using Tip Dates with Phylogenetic Trees in BEAST",
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  "Date": "2019-10-21",
  "Author": "Adrien Rieux, Camilo Khatchikian",
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  "Description": "Assists performing tip-dating of phylogenetic trees with\nBEAST BEAST is a popular software for phylogenetic analysis.\nThe package assists the implementation of various phylogenetic\ntip- dating tests using BEAST. It contains two main functions.\nThe first one allows preparing date randomization analyses,\nwhich assess the temporal signal of a data set. The second\nfunction allows performing leave-one-out analyses, which test\nfor the consistency between independent calibration sequences\nand allow pinpointing those leading to potential bias. The\nincluded tutorial provides detailed step-by-step instructions.\nAn expanded description of the package can be found in article:\nRieux, A. and Khatchikian, C.E. (2017), TIPDATINGBEAST: an R\npackage to assist the implementation of phylogenetic tip-dating\ntests using BEAST. Molecular Ecology Resources, 17: 608-613.\n<onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12603>.",
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      "title": "Tip dating of phylogenetic trees with BEAST",
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        "TipDatingBeast"
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