Data from: The impact of anchored phylogenomics and taxon sampling on phylogenetic inference in narrow-mouthed frogs (Anura, Microhylidae)

Peloso PLV, Frost DR, Richards SJ, Rodrigues MT, Donnellan S, Matsui M, Raxworthy CJ, Biju SD, Lemmon EM, Wheeler WC, Lemmon AR

Date Published: March 19, 2015

DOI: http://dx.doi.org/10.5061/dryad.8112f

 

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Title Trees
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Description Tree files (.tre) of alternative analyses for all five distinct datasets. Files contain only a single tree (consensus tree if more than one equally parsimonious tree was recovered) and include support values. Jackknife for parsimony analyses, Bootstrap for maximum likelihood analyses.
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Title Raw Anchored Phylogenomic loci alignments
Downloaded 41 times
Description These alignments contain the raw sequences, i.e., prior to trimming. Alignments were generated in MUSCLE.
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Title Datasets
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Description Contain all five alternative datasets used for the analyses. Description of the datasets are given in the text (see Figure 2).
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Title Supporting Information - Table S1
Downloaded 13 times
Description Metadata for samples included in phylogenetic analyses -- Voucher Specimen, Locality, GenBank Accession Number. This file is the same as the one available at Wiley Online Library and published together with the manuscript (supporting Information Table S1). It is reproduced here as a backup for the original.
Download Supporting Information - Table S1.xlsx (2.031 Mb)
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Title Supporting Informatoion - Text S1
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Description Material and methods -- additional details on sequencing methods; primer sequences and references. This file is the same as the one available at Wiley Online Library and published together with the manuscript (supporting Information Text S1). It is reproduced here as a backup for the original.
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Title Supporting Information - Text S2
Downloaded 9 times
Description Trimming patterns for Anchored Phylogenomic loci. This file is the same as the one available at Wiley Online Library and published together with the manuscript (supporting Information Text S2). It is reproduced here as a backup for the original.
Download Supporting Information - Text S2.txt (91.55 Kb)
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Title Supporting Information - Text S3
Downloaded 6 times
Description Implied alignment of the optimal tree inferred with POY (tree-alignment) and the TE142 dataset. This file is the same as the one available at Wiley Online Library and published together with the manuscript (Supporting Information Text S3). It is reproduced here as a backup for the original.
Download Supporting Information - Text S3 (5.674 Mb)
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Title Scripts
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Description Scripts used for assembly, base calling, and orthology assessment of the Anchored Phylogenomics loci (script by ARL).
Download Peloso-etal2015-Scripts.zip (342.1 Kb)
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When using this data, please cite the original publication:

Peloso PLV, Frost DR, Richards SJ, Rodrigues MT, Donnellan S, Matsui M, Raxworthy CJ, Biju SD, Lemmon EM, Wheeler WC (2015) The impact of anchored phylogenomics and taxon sampling on phylogenetic inference in narrow-mouthed frogs (Anura, Microhylidae). Cladistics 32(2): 113-140. http://dx.doi.org/10.1111/cla.12118

Additionally, please cite the Dryad data package:

Peloso PLV, Frost DR, Richards SJ, Rodrigues MT, Donnellan S, Matsui M, Raxworthy CJ, Biju SD, Lemmon EM, Wheeler WC, Lemmon AR (2015) Data from: The impact of anchored phylogenomics and taxon sampling on phylogenetic inference in narrow-mouthed frogs (Anura, Microhylidae). Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.8112f
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