Diversification and SSE pack

Development fixture package dsh-revbayes-forge-pack-diversification of the RevBayes Forge plugin (dsh-revbayes-forge).

English

Pack id: diversification
Tool: revbayes_generate_diversification
Maturity: verified (enabled by default)

What it generates. Builds diversification scripts: birth-death processes on reconstructed trees (dnBDP/dnCDBDP), state-dependent speciation and extinction (SSE), and the hidden-state HiSSE and ClaSSE variants. Inputs are a tree alone or a tree plus character-state data, with sampling fractions in [0, 1] and death < birth checked before generation.

Analyses.

Analysis	Title	Canonical golden
`birthdeath`	Birth-death	`birthdeath.Rev`
`sse`	BiSSE/SSE	`sse.Rev`
`hisse`	HiSSE	—
`classe`	ClaSSE	—

Full spec fields, data requirements, and limitations: docs/en/model-packs.md.

Fixtures. Files under fixtures/ are synthetic small datasets shipped with the repository; they back the golden scripts, canonical specs, and runtime checks used by npm test and npm run test:runtime.

Enablement. Enable this pack in the settings page (RevBayes Forge → Packs); no separate installation is needed.

中文

Pack id：diversification
工具：revbayes_generate_diversification
成熟度：verified（默认启用）

生成内容。 生成多样化分析脚本：重建树上的 birth-death 过程（dnBDP/dnCDBDP）、状态依赖物种形成-灭绝（SSE），以及隐状态的 HiSSE 与 ClaSSE 变体。输入可以是单棵树，或树加性状状态数据；生成前检查 sampling ∈ [0, 1] 且 death < birth。

分析列表。

Analysis	Title	Canonical golden
`birthdeath`	Birth-death	`birthdeath.Rev`
`sse`	BiSSE/SSE	`sse.Rev`
`hisse`	HiSSE	—
`classe`	ClaSSE	—

完整 spec 字段、数据要求与限制：docs/zh/model-packs.md。

夹具数据。 fixtures/ 下的文件均为随仓库分发的合成小数据，支撑 golden 脚本、canonical spec 与运行时检查，供 npm test 与 npm run test:runtime 使用。

启用方式。 在设置页（RevBayes Forge → Packs）勾选启用即可，无需单独安装。

dsh-revbayes-forge-pack-diversification

Install

README

Diversification and SSE pack

English

中文