Data files for "Phylogenomics reveals the history of host use in mosquitoes," Soghigian et al. 2023.

Data files for "Phylogenomics reveals the history of host use in mosquitoes," Soghigian et al. 2023. These are raw alignment and R data/analysis files that we presented in our manuscript. For code and other resources, refer to our GitHub repository (https://github.com/jsoghigian/culicitree).Soghigian_etal_NatComm_Culicidae_pcm_R.tar.gz - The scripts, inputs, and outputs for our phylogenetic comparative methods.aa_pruned_75.aa.phy.tar.bz2 - The amino acid alignment used to generate the maximum likelihood topology discussed in the manuscript and used for subsequent analyses.nt_pruned_75.phy.tar.bz2 - The nucleotide alignment discussed in the manuscript. Due to saturation, we focus analyses on codon position two.pres90.aa.noog.phy.tar.bz2 - The alignment used in MCMCTree for divergence time analyses.aa_pruned_75.aa.parts - Partition file for the amino acid alignment.nt*.parts files - Partition files for the nucleotide alignment.

本数据集对应Soghigian等人2023年发表的论文《系统发育基因组学揭示蚊类宿主利用历史》（Phylogenomics reveals the history of host use in mosquitoes），包含本文稿中呈现的原始序列比对文件及R语言数据/分析文件。如需获取代码及其他研究资源，请参阅我们的GitHub仓库：https://github.com/jsoghigian/culicitree。
Soghigian_etal_NatComm_Culicidae_pcm_R.tar.gz - 本研究系统发育比较方法（phylogenetic comparative methods）所用的脚本、输入文件及输出结果。
aa_pruned_75.aa.phy.tar.bz2 - 用于生成本文稿中讨论的最大似然拓扑结构并应用于后续分析的氨基酸序列比对文件。
nt_pruned_75.phy.tar.bz2 - 本文稿中提及的核苷酸序列比对文件。由于序列进化存在饱和现象，本研究的分析仅聚焦于密码子第二位点。
pres90.aa.noog.phy.tar.bz2 - 用于MCMCTree软件开展分化时间分析的序列比对文件。
aa_pruned_75.aa.parts - 氨基酸序列比对文件的分区文件（partition file）。
nt*.parts文件 - 核苷酸序列比对文件的分区文件。