Phylogenetic analyses data from the article "Synchrotron X-ray tomography sheds light on the phylogenetic affinities of the enigmatic thylacocephalans within Pancrustacea"

This repository contains the data of the phylogenetic analyses from the paper Synchrotron X-ray tomography sheds light on the phylogenetic affinities of the enigmatic thylacocephalans with Pancrustacea. Two analyses were ran on made with Mr. Bayes 3.2.7a.: one with backbone topological constraints, one without. For each type of analysis), the corresponding folder includes: the matrix with the script and parameters to run the analysis. The file is in nexus format (.nex) the results, which contains the output file of the MrBayes terminal (.output), the Mcmc run diagnostics file (.mcmc file), the parameter statistics file (.pstat file), the model likelihood estimates for each run of the analysis (.lstat file), the maximum posterior probability tree (.con.tre file), the sampled trees and their probabilities (.trprobs file),the specification of clades (.parts file), the tree statistics (.tstat file), the branch length statistics (.vstat file), the trees generated for each run sampled every 1000 generations (.runX.t file), the substitution model parameters sampled every 1000 generations (.runX.p file) The character list is available in electronic supplementary material of the article.本仓库包含论文《同步辐射X射线断层扫描揭示神秘的薄壳类节肢动物（thylacocephalans）与泛甲壳动物（Pancrustacea）的系统发育亲缘关系》的系统发育分析相关数据。本研究使用Mr. Bayes 3.2.7a开展了两组系统发育分析：一组带有核心拓扑结构约束，另一组无约束。针对每一类分析，其对应的文件夹包含如下内容： 用于运行分析的脚本与参数矩阵，文件格式为NEXUS格式（.nex）； 分析结果具体包括：MrBayes终端输出文件（.output）、马尔可夫链蒙特卡洛（MCMC）运行诊断文件（.mcmc）、参数统计文件（.pstat）、各次分析运行的模型似然估计文件（.lstat）、最大后验概率树文件（.con.tre）、采样树及其概率文件（.trprobs）、分支定义文件（.parts）、树统计文件（.tstat）、分支长度统计文件（.vstat）、每1000代采样的各次运行树文件（.runX.t）、每1000代采样的替换模型参数文件（.runX.p）。 特征列表可参见该论文的电子补充材料。