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数据与复现生物信息与基因组学FreedomIntelligence/OpenClaw-Medical-Skills数据与复现
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bio-phylo-tree-io

维护者 FreedomIntelligence · 最近更新 2026年4月1日

Read/write phylogenetic trees in Newick, Nexus, PhyloXML formats.

OpenClawNanoClaw分析处理复现实验bio-phylo-tree-io🧠 bioos extended suitebioos extended bioinformatics suiteread

原始来源

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-phylo-tree-io

维护者
FreedomIntelligence
许可
MIT
最近更新
2026年4月1日

技能摘要

来自 SKILL.md 的关键信息

2 min

核心说明

  • 解析，write，、 convert phylogenetic tree files in various formats。
  • tree = Phylo.read('tree.nwk'，'newick')。

原始文档

SKILL.md 摘录

Supported Formats

FormatExtensionDescription
newick.nwk, .tre, .treeStandard format with branch lengths
nexus.nex, .nxsRich format with annotations (PAUP, MrBayes)
phyloxml.xmlXML format with metadata support
nexml.nexmlModern XML format
cdao.rdfRDF format (limited use)

Read multiple trees from file

trees = list(Phylo.parse('bootstrap_trees.nwk', 'newick')) print(f'Loaded {len(trees)} trees')

Read from string

tree_string = '((A:0.1,B:0.2):0.3,(C:0.4,D:0.5):0.6);' tree = Phylo.read(StringIO(tree_string), 'newick')

适用场景

  • Use bio-phylo-tree-io ，用于 genomics 、 bioinformatics workflows。
  • Apply bio-phylo-tree-io to sequencing，variant，或 omics analysis tasks。

不适用场景

  • Do not rely on this catalog entry alone ，用于 installation 或 maintenance details。

上游相关技能

  • tree-visualization - Draw and export tree figures
  • tree-manipulation - Root, prune, and modify tree structure
  • distance-calculations - Compute distances and build trees from alignments
  • alignment/alignment-io - Read MSA files for tree construction

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