Data for hybpiper2-nf and resolve_paralogs-nf: Containerization and additional options for assembly and paralog detection in target enrichment data

This is an example dataset of 24 species of Pycnosorus and Australian Craspedia to illustrate the functionality of hybpiper2-nf and resolve_paralogs-nf, two Nextflow scripts and associated Singularity container developed for the Genomics for Australian Plants consortium's phylogenomic pillar Australian Angiosperms Tree of Life.\nLineage: DNA extraction from herbarium specimens or silica-dried leaf samples. Library prep. Target capture using the Angiosperms353 bait kit. Illumina sequencing. Trimmomatic, HybPiper assembly, paralog resolution using gene tree topology, concatenation, likelihood analysis in iqtree2.

本数据集为包含24种密序菊属（Pycnosorus）和澳大利亚球花菊属（Craspedia）物种的示例数据集，旨在演示hybpiper2-nf与resolve_paralogs-nf两款Nextflow脚本及配套Singularity容器的功能。上述工具是为澳大利亚植物基因组学联盟（Genomics for Australian Plants）的系统发育组学支柱项目——澳大利亚被子植物生命之树（Australian Angiosperms Tree of Life）开发的。
实验流程如下：从蜡叶标本或硅胶干燥叶片样品中提取基因组DNA；构建测序文库；使用Angiosperms353诱饵试剂盒开展目标区域捕获；进行Illumina测序；后续分析步骤包括Trimmomatic质量修剪、HybPiper序列组装、基于基因树拓扑结构的旁系同源基因解析、序列拼接以及iqtree2中的似然性分析。