Supplement 1. Code for tree-building R function, along with example data and code for use.

File List Supplement-tc2ape-script.R (MD5: 4d291f1a0c41b2e9f75dbb6c322105d0) R function to build tree Supplement-build-tree-script.R (MD5: 393ce10283ab945ed0cb151556d7c8fc) example use of R function Hemiptera-taxon-container.csv (MD5: 86b7e9fee0fe43aeefbdd8212ae1cbe9) example data for R function Description The R function used to assemble hierarchical relationships ("trees") from workflow used in the manuscript is provided. The Hemiptera data set provided shows how data entry is organized in a simple two-column table, with all taxa and higher clades listed exactly once in the left column, and all higher nodes (non-tips) listed at least once in the right column. The "build-tree-script" demonstrates how the data set and custom function are combined in practice to produce a usable tree.

文件列表
Supplement-tc2ape-script.R（MD5值：4d291f1a0c41b2e9f75dbb6c322105d0）：用于构建层级树的R函数
Supplement-build-tree-script.R（MD5值：393ce10283ab945ed0cb151556d7c8fc）：该R函数的示例使用脚本
Hemiptera-taxon-container.csv（MD5值：86b7e9fee0fe43aeefbdd8212ae1cbe9）：该R函数的配套示例数据集

本数据集提供了用于组装论文工作流中层级关系（即系统发育树）的R函数。所附带的半翅目（Hemiptera）数据集展示了如何以简单双列表格组织数据录入：所有分类单元（taxon）与高级支系（clade）均在左栏唯一列出，所有高级节点（非末端节点）均在右栏至少出现一次。配套的"build-tree-script"脚本演示了如何在实际场景中结合该数据集与自定义函数，以生成可用的层级树。