43 research outputs found

    Jackknife

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    Results of 108-locus and 20-locus jackknife analyses. See Figure 3

    OrthologID Output

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    Data partitions from OrthologID aligned and in NEXUS format. "full" dataset includes all orthologs recovered and "m27" includes only partitions present in at least 27 taxa

    Code

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    Scripts used in analyses and plotting selected figures. See also https://github.com/marekborowiec/metazoan_phylogenomics/blob/master/gene_stats.

    PhyloBayes Results

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    Results of all PhyloBayes analyses conducted in the study including Bayesien posterior densities and traces of selected parameters as well as consensus trees

    PartitionFinder Results

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    Control files, data and results for all PartitionFinder analyses on concatenated matrices conducted in the study

    Partition Statistics

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    Spreadsheet containing data for all of the partition-specific statistics used to construct the various matrices described in the paper

    Binned Analyses

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    Results of ML analyses of matrices binned according to rate of locus evolution. Separate analyses were carried out for 60-, 108-, and 216-locus bins. The text files contain support for the topologies of interest

    Data Matrices

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    All concatenated matrices in PHYLIP and NEXUS formats. The names of the concatenated matrices correspond to Table 1

    Effect of increasing read depth on the strength of the difference between DEGs measured as M (absolute value of the fold difference in expression) and D (the raw difference in expression).

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    <p>Effect of increasing read depth on the strength of the difference between DEGs measured as M (absolute value of the fold difference in expression) and D (the raw difference in expression).</p
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