dsh-meta-analysis 0.0.0-stage → 0.1.0

package/CHANGELOG.md

@@ -0,0 +1,48 @@
+# Changelog
+
+All notable changes to this project are documented here. The format follows
+[Keep a Changelog](https://keepachangelog.com/en/1.1.0/), and this project
+adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
+
+## [Unreleased]
+
+### Fixed
+
+- `level` is now applied to the pooled and per-study confidence intervals. It
+  was accepted (and exposed in config) but the critical value was hard-coded to
+  the 95% value, so a `level` other than 0.95 silently produced 95% intervals.
+- `ma_report` rejects a malformed `result` payload with `INVALID_INPUT` instead
+  of letting a `TypeError` escape the tool boundary.
+- Invalid study objects, models and confidence levels raise `RangeError` and are
+  reported as `INVALID_INPUT` by the tools. A study CI must be centred on the
+  effect (it is required to be symmetric on the analysis scale), and CI bounds
+  must be finite.
+
+### Added
+
+- Tests for the requested confidence level, invalid models/levels/studies,
+  malformed `ma_report` payloads and the function-plugin mount contract (21
+  tests total).
+
+## [0.1.0] - 2026-11-08
+
+First release: meta-analysis arithmetic.
+
+### Added
+
+- `ma_pool`: fixed-effect and DerSimonian–Laird random-effects pooling with
+  95% CIs, Q/df/p, I², τ², per-study weights and warnings; SE may be supplied
+  directly or derived from a symmetric CI (a disagreement > 5% is rejected).
+- `ma_convert`: OR/RR log conversion with CI-derived SE, d⇄r, d⇄OR (logistic
+  approximation), SMD from two means, and SE from a CI — each with the formula
+  it used.
+- `ma_report`: forest-plot data plus Markdown and SARIF 2.1.0.
+- Egger test at k ≥ 10, labelled a screening aid.
+- Dependency-free χ²/t/Φ⁻¹ special functions with documented accuracy.
+- 16 tests including hand-calculated pooled estimates.
+
+### Notes
+
+- No REML/Paule–Mandel, meta-regression, subgroup automation, trim-and-fill or
+  plots.
+- Pure arithmetic: no files are written, so there is no REP record.

package/LICENSE

@@ -0,0 +1,201 @@
+                                 Apache License
+                           Version 2.0, January 2004
+                        http://www.apache.org/licenses/
+
+   TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION
+
+   1. Definitions.
+
+      "License" shall mean the terms and conditions for use, reproduction,
+      and distribution as defined by Sections 1 through 9 of this document.
+
+      "Licensor" shall mean the copyright owner or entity authorized by
+      the copyright owner that is granting the License.
+
+      "Legal Entity" shall mean the union of the acting entity and all
+      other entities that control, are controlled by, or are under common
+      control with that entity. For the purposes of this definition,
+      "control" means (i) the power, direct or indirect, to cause the
+      direction or management of such entity, whether by contract or
+      otherwise, or (ii) ownership of fifty percent (50%) or more of the
+      outstanding shares, or (iii) beneficial ownership of such entity.
+
+      "You" (or "Your") shall mean an individual or Legal Entity
+      exercising permissions granted by this License.
+
+      "Source" form shall mean the preferred form for making modifications,
+      including but not limited to software source code, documentation
+      source, and configuration files.
+
+      "Object" form shall mean any form resulting from mechanical
+      transformation or translation of a Source form, including but
+      not limited to compiled object code, generated documentation,
+      and conversions to other media types.
+
+      "Work" shall mean the work of authorship, whether in Source or
+      Object form, made available under the License, as indicated by a
+      copyright notice that is included in or attached to the work
+      (an example is provided in the Appendix below).
+
+      "Derivative Works" shall mean any work, whether in Source or Object
+      form, that is based on (or derived from) the Work and for which the
+      editorial revisions, annotations, elaborations, or other modifications
+      represent, as a whole, an original work of authorship. For the purposes
+      of this License, Derivative Works shall not include works that remain
+      separable from, or merely link (or bind by name) to the interfaces of,
+      the Work and Derivative Works thereof.
+
+      "Contribution" shall mean any work of authorship, including
+      the original version of the Work and any modifications or additions
+      to that Work or Derivative Works thereof, that is intentionally
+      submitted to Licensor for inclusion in the Work by the copyright owner
+      or by an individual or Legal Entity authorized to submit on behalf of
+      the copyright owner. For the purposes of this definition, "submitted"
+      means any form of electronic, verbal, or written communication sent
+      to the Licensor or its representatives, including but not limited to
+      communication on electronic mailing lists, source code control systems,
+      and issue tracking systems that are managed by, or on behalf of, the
+      Licensor for the purpose of discussing and improving the Work, but
+      excluding communication that is conspicuously marked or otherwise
+      designated in writing by the copyright owner as "Not a Contribution."
+
+      "Contributor" shall mean Licensor and any individual or Legal Entity
+      on behalf of whom a Contribution has been received by Licensor and
+      subsequently incorporated within the Work.
+
+   2. Grant of Copyright License. Subject to the terms and conditions of
+      this License, each Contributor hereby grants to You a perpetual,
+      worldwide, non-exclusive, no-charge, royalty-free, irrevocable
+      copyright license to reproduce, prepare Derivative Works of,
+      publicly display, publicly perform, sublicense, and distribute the
+      Work and such Derivative Works in Source or Object form.
+
+   3. Grant of Patent License. Subject to the terms and conditions of
+      this License, each Contributor hereby grants to You a perpetual,
+      worldwide, non-exclusive, no-charge, royalty-free, irrevocable
+      (except as stated in this section) patent license to make, have made,
+      use, offer to sell, sell, import, and otherwise transfer the Work,
+      where such license applies only to those patent claims licensable
+      by such Contributor that are necessarily infringed by their
+      Contribution(s) alone or by combination of their Contribution(s)
+      with the Work to which such Contribution(s) was submitted. If You
+      institute patent litigation against any entity (including a
+      cross-claim or counterclaim in a lawsuit) alleging that the Work
+      or a Contribution incorporated within the Work constitutes direct
+      or contributory patent infringement, then any patent licenses
+      granted to You under this License for that Work shall terminate
+      as of the date such litigation is filed.
+
+   4. Redistribution. You may reproduce and distribute copies of the
+      Work or Derivative Works thereof in any medium, with or without
+      modifications, and in Source or Object form, provided that You
+      meet the following conditions:
+
+      (a) You must give any other recipients of the Work or
+          Derivative Works a copy of this License; and
+
+      (b) You must cause any modified files to carry prominent notices
+          stating that You changed the files; and
+
+      (c) You must retain, in the Source form of any Derivative Works
+          that You distribute, all copyright, patent, trademark, and
+          attribution notices from the Source form of the Work,
+          excluding those notices that do not pertain to any part of
+          the Derivative Works; and
+
+      (d) If the Work includes a "NOTICE" text file as part of its
+          distribution, then any Derivative Works that You distribute must
+          include a readable copy of the attribution notices contained
+          within such NOTICE file, excluding those notices that do not
+          pertain to any part of the Derivative Works, in at least one
+          of the following places: within a NOTICE text file distributed
+          as part of the Derivative Works; within the Source form or
+          documentation, if provided along with the Derivative Works; or,
+          within a display generated by the Derivative Works, if and
+          wherever such third-party notices normally appear. The contents
+          of the NOTICE file are for informational purposes only and
+          do not modify the License. You may add Your own attribution
+          notices within Derivative Works that You distribute, alongside
+          or as an addendum to the NOTICE text from the Work, provided
+          that such additional attribution notices cannot be construed
+          as modifying the License.
+
+      You may add Your own copyright statement to Your modifications and
+      may provide additional or different license terms and conditions
+      for use, reproduction, or distribution of Your modifications, or
+      for any such Derivative Works as a whole, provided Your use,
+      reproduction, and distribution of the Work otherwise complies with
+      the conditions stated in this License.
+
+   5. Submission of Contributions. Unless You explicitly state otherwise,
+      any Contribution intentionally submitted for inclusion in the Work
+      by You to the Licensor shall be under the terms and conditions of
+      this License, without any additional terms or conditions.
+      Notwithstanding the above, nothing herein shall supersede or modify
+      the terms of any separate license agreement you may have executed
+      with Licensor regarding such Contributions.
+
+   6. Trademarks. This License does not grant permission to use the trade
+      names, trademarks, service marks, or product names of the Licensor,
+      except as required for reasonable and customary use in describing the
+      origin of the Work and reproducing the content of the NOTICE file.
+
+   7. Disclaimer of Warranty. Unless required by applicable law or
+      agreed to in writing, Licensor provides the Work (and each
+      Contributor provides its Contributions) on an "AS IS" BASIS,
+      WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or
+      implied, including, without limitation, any warranties or conditions
+      of TITLE, NON-INFRINGEMENT, MERCHANTABILITY, or FITNESS FOR A
+      PARTICULAR PURPOSE. You are solely responsible for determining the
+      appropriateness of using or redistributing the Work and assume any
+      risks associated with Your exercise of permissions under this License.
+
+   8. Limitation of Liability. In no event and under no legal theory,
+      whether in tort (including negligence), contract, or otherwise,
+      unless required by applicable law (such as deliberate and grossly
+      negligent acts) or agreed to in writing, shall any Contributor be
+      liable to You for damages, including any direct, indirect, special,
+      incidental, or consequential damages of any character arising as a
+      result of this License or out of the use or inability to use the
+      Work (including but not limited to damages for loss of goodwill,
+      work stoppage, computer failure or malfunction, or any and all
+      other commercial damages or losses), even if such Contributor
+      has been advised of the possibility of such damages.
+
+   9. Accepting Warranty or Additional Liability. While redistributing
+      the Work or Derivative Works thereof, You may choose to offer,
+      and charge a fee for, acceptance of support, warranty, indemnity,
+      or other liability obligations and/or rights consistent with this
+      License. However, in accepting such obligations, You may act only
+      on Your own behalf and on Your sole responsibility, not on behalf
+      of any other Contributor, and only if You agree to indemnify,
+      defend, and hold each Contributor harmless for any liability
+      incurred by, or claims asserted against, such Contributor by reason
+      of your accepting any such warranty or additional liability.
+
+   END OF TERMS AND CONDITIONS
+
+   APPENDIX: How to apply the Apache License to your work.
+
+      To apply the Apache License to your work, attach the following
+      boilerplate notice, with the fields enclosed by brackets "[]"
+      replaced with your own identifying information. (Don't include
+      the brackets!)  The text should be enclosed in the appropriate
+      comment syntax for the file format. We also recommend that a
+      file or class name and description of purpose be included on the
+      same "printed page" as the copyright notice for easier
+      identification within third-party archives.
+
+   Copyright [yyyy] [name of copyright owner]
+
+   Licensed under the Apache License, Version 2.0 (the "License");
+   you may not use this file except in compliance with the License.
+   You may obtain a copy of the License at
+
+       http://www.apache.org/licenses/LICENSE-2.0
+
+   Unless required by applicable law or agreed to in writing, software
+   distributed under the License is distributed on an "AS IS" BASIS,
+   WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+   See the License for the specific language governing permissions and
+   limitations under the License.

package/README-zh.md

@@ -0,0 +1,101 @@
+# dsh-meta-analysis
+
+**把效应量合并起来 —— 每一步算术都能逐行核对。**
+
+*带具名公式的效应量换算、固定效应与 DerSimonian–Laird 随机效应合并、Q / I² / τ²、森林图数据、Markdown + SARIF，以及一项在少于十项研究时拒绝运行的轻量 Egger 检验。*
+
+[![License](https://img.shields.io/badge/license-Apache%202.0-blue.svg)](LICENSE)
+[![Node](https://img.shields.io/badge/node-%5E22.19%20%7C%7C%20%3E%3D24.9-brightgreen.svg)]()
+
+[English](README.md) · 简体中文
+
+---
+
+## 它做什么
+
+- **`ma_pool`** —— 在单一分析尺度上做逆方差合并。固定效应：`w = 1/v`，合并值 `Σwθ/Σw`，`SE = 1/√Σw`。随机效应：DerSimonian–Laird `τ²`，权重 `1/(v+τ²)`。报告 Q、df、p、I²、τ²、各研究权重，以及按所请求置信水平（`level`，默认 0.95）计算的合并 CI/p。
+- **`ma_convert`** —— OR⇄logOR、RR⇄logRR（由 CI 求 SE）、d⇄r、d⇄OR（logistic 近似）、由两个均值求 SMD、由 CI 求 SE。每个结果都会注明所用公式及任何近似。
+- **`ma_report`** —— 与渲染器无关的森林图数据（效应、CI、权重百分比 + 合并行）、Markdown、SARIF 2.1.0。
+- **Egger** —— 仅在 k ≥ 10 时运行：以 `θᵢ/SEᵢ` 对 `1/SEᵢ` 做 OLS；截距用于检验小样本研究效应。它被明确标为筛查辅助手段，而不是发表偏倚的证据。
+
+## 它不做什么
+
+- **除 DL 外不做模型拟合。** 不支持 REML/Paule–Mandel，不做 meta 回归，不自动做亚组分析或留一法分析（输入由你自行调整），也不做 trim-and-fill。
+- **不做偏倚风险判断。** 权重不反映研究质量。
+- **不做数据提取。** 效应量与 SE 必须按同一尺度提供；`ma_convert` 可帮助生成。
+- **不绘图。** 只提供森林图数据；绘制交给宿主或其他工具。
+- **不写证据存储。** 本插件是纯算术：不会向磁盘写入任何内容，README 如实说明这一点，而不是假装存在 REP 记录。
+
+## 公式
+
+| 量 | 公式 |
+|---|---|
+| 固定效应合并值 | `Σwᵢθᵢ / Σwᵢ`, `wᵢ = 1/vᵢ` |
+| 随机效应合并值 | 同上，权重改为 `wᵢ* = 1/(vᵢ + τ²)` |
+| Q | `Σ wᵢ(θᵢ − θ_FE)²`, df = k−1 |
+| I² | `max(0, (Q − df)/Q)` |
+| τ² (DL) | `max(0, (Q − df)/(Σw − Σw²/Σw))` |
+| 由 CI 求 SE | `(high − low)/(2·z)` |
+| d→r | `d/√(d²+4)` |
+| d⇄OR | `exp(d·π/√3)` / `log(OR)·√3/π` |
+| SMD | `(m₁−m₂)/s_pooled`, SE `√(1/n₁+1/n₂+d²/(2(n₁+n₂)))` |
+| Egger | 以 `θᵢ/SEᵢ` 对 `1/SEᵢ` 做 OLS 的截距，t 检验 df = k−2 |
+
+正态尾部 p 使用 A&S 7.1.26 近似（约 1e-7）；χ² 与 t 使用正则化不完全 gamma/beta 连分数（约 1e-10）。两者都在 `src/math.ts` 中实现，且无依赖。
+
+## 工具
+
+### `ma_pool`
+
+`{ studies: [{label, effect, se?, ciLow?, ciHigh?}], model?, level? }` → `{ ok, result }`。
+
+### `ma_convert`
+
+`{ conversion, value?, low?, high?, level?, mean1?, sd1?, n1?, mean2?, sd2?, n2? }` → `{ ok, result }`。
+
+### `ma_report`
+
+`{ result, measure? }` → `{ ok, forest, markdown, sarif }`。
+
+### 错误码
+
+`INVALID_INPUT`（非有限值、非正的 SE/OR/RR、|r| ≥ 1、SE 与 CI 不一致、k < 2）。
+
+## 兼容性与安装
+
+| | |
+|---|---|
+| DeepSeek Harness | **`dsh-v0.2.1-rc.5`**（2026-11-08 实测）；peer `>=0.2.1-0 <0.3.0 \|\| >=0.2.2-0 <0.3.0` |
+| Node | `^22.19.0 \|\| >=24.9.0`（实测 `24.22.1`），仅 ESM |
+| Peer 依赖 | `@perrylink/dsh-research-core ^0.1.0`、`@deepseek-ai/cordis ^4.0.5-alpha.1`、`@deepseek-ai/dsh-tools`、`@deepseek-ai/schemastery ^3.18.5-alpha.1` |
+| 运行时依赖 | **零** |
+
+```sh
+dsh plugin --profile <name> add @perrylink/dsh-research-core dsh-meta-analysis
+dsh --profile <name> --dump-config | grep dsh-meta-analysis
+```
+
+## 配置
+
+| 键 | 默认值 | 含义 |
+|---|---|---|
+| `enabled` | `true` | `false` 时不挂载任何内容 |
+| `model` | `both` | 默认合并模型（`fixed` / `random` / `both`） |
+| `level` | `0.95` | 默认置信水平 |
+
+## 评测
+
+**21 个测试**：特殊函数对照已知临界值（χ²(8,2)=0.9817、t(2.306,8)≈0.05、z(1.96)≈0.05、Φ⁻¹(0.975)）、换算（logOR+SE、d⇄r、d⇄OR、SMD、不可能输入）、合并（手工计算的固定/随机效应估计，三项研究得到 Q=8、I²=0.75、τ²=0.03）、合并与各研究 CI 按所请求置信水平计算、由 CI 推导 SE 及拒绝 SE/CI 不一致、非法模型/置信水平/研究输入、Egger 在 k=10 时的门控、异质性警告、工具 schema、格式错误报告拒绝、端到端报告、插件契约、包契约。
+
+不声称基准测试结果：这是闭式算术，其正确性用手工计算和已发表的临界值来核对，而不是靠带标注的语料。
+
+## 已知限制（v0.1）
+
+- 每次调用只处理一个分析尺度；多尺度协调由调用方负责。
+- 已知 DL 的 τ² 在 k 较小时有偏；当 k < 5 时插件会警告。
+- Egger 检验假设效应服从正态分布，在少于约 10 项研究时检验效能不足。
+- 不提供预测区间（可以在不改变接口的情况下加入）。
+
+## 许可
+
+Apache-2.0。运行时不含第三方代码。

package/README.md

@@ -1,3 +1,101 @@
-# Temporary Holding Version
+# dsh-meta-analysis
 
-This version is a temporary placeholder for this package. An operational version to replace this has been submitted for review and is awaiting a staged release.
+**Pool the effect sizes — with arithmetic you can check line by line.**
+
+*Effect-size conversion with named formulas, fixed-effect and DerSimonian–Laird random-effects pooling, Q / I² / τ², forest-plot data, Markdown + SARIF, and a light Egger test that refuses to run on fewer than ten studies.*
+
+[![License](https://img.shields.io/badge/license-Apache%202.0-blue.svg)](LICENSE)
+[![Node](https://img.shields.io/badge/node-%5E22.19%20%7C%7C%20%3E%3D24.9-brightgreen.svg)]()
+
+English · [简体中文](README-zh.md)
+
+---
+
+## What it does
+
+- **`ma_pool`** — inverse-variance pooling on one analysis scale. Fixed: `w = 1/v`, pooled `Σwθ/Σw`, `SE = 1/√Σw`. Random: DerSimonian–Laird `τ²`, weights `1/(v+τ²)`. Reports Q, df, p, I², τ², per-study weights and the pooled CI/p at the requested confidence level (`level`, default 0.95).
+- **`ma_convert`** — OR⇄logOR, RR⇄logRR (SE from a CI), d⇄r, d⇄OR (logistic approximation), SMD from two means, SE from a CI. Every result names the formula and any approximation.
+- **`ma_report`** — renderer-agnostic forest data (effect, CI, weight % + pooled row), Markdown, SARIF 2.1.0.
+- **Egger** — only at k ≥ 10: OLS of θᵢ/SEᵢ on 1/SEᵢ; the intercept tests small-study effects. Labelled a screening aid, not proof of reporting bias.
+
+## What it does not do
+
+- **No model fitting beyond DL.** No REML/Paule–Mandel, no meta-regression, no subgroup or leave-one-out automation (the inputs are yours to vary), no trim-and-fill.
+- **No risk-of-bias judgement.** Weights do not encode study quality.
+- **No data extraction.** Effect sizes and SEs must be supplied on one scale; `ma_convert` helps produce them.
+- **No plots.** Forest data is provided; drawing belongs to the host or another tool.
+- **No evidence store.** This plugin is pure arithmetic: nothing is written to disk, and the README says so instead of pretending there is a REP record.
+
+## Formulas
+
+| Quantity | Formula |
+|---|---|
+| Fixed pooled | `Σwᵢθᵢ / Σwᵢ`, `wᵢ = 1/vᵢ` |
+| Random pooled | same with `wᵢ* = 1/(vᵢ + τ²)` |
+| Q | `Σ wᵢ(θᵢ − θ_FE)²`, df = k−1 |
+| I² | `max(0, (Q − df)/Q)` |
+| τ² (DL) | `max(0, (Q − df)/(Σw − Σw²/Σw))` |
+| SE from CI | `(high − low)/(2·z)` |
+| d→r | `d/√(d²+4)` |
+| d⇄OR | `exp(d·π/√3)` / `log(OR)·√3/π` |
+| SMD | `(m₁−m₂)/s_pooled`, SE `√(1/n₁+1/n₂+d²/(2(n₁+n₂)))` |
+| Egger | OLS intercept of `θᵢ/SEᵢ` on `1/SEᵢ`, t with df = k−2 |
+
+Normal-tail p uses an A&S 7.1.26 approximation (~1e-7); χ² and t use regularized incomplete gamma/beta continued fractions (~1e-10). Both are implemented in `src/math.ts` with no dependencies.
+
+## Tools
+
+### `ma_pool`
+
+`{ studies: [{label, effect, se?, ciLow?, ciHigh?}], model?, level? }` → `{ ok, result }`.
+
+### `ma_convert`
+
+`{ conversion, value?, low?, high?, level?, mean1?, sd1?, n1?, mean2?, sd2?, n2? }` → `{ ok, result }`.
+
+### `ma_report`
+
+`{ result, measure? }` → `{ ok, forest, markdown, sarif }`.
+
+### Error codes
+
+`INVALID_INPUT` (non-finite values, non-positive SE/OR/RR, |r| ≥ 1, SE/CI disagreement, k < 2).
+
+## Compatibility & install
+
+| | |
+|---|---|
+| DeepSeek Harness | **`dsh-v0.2.1-rc.5`** (verified 2026-11-08); peer `>=0.2.1-0 <0.3.0 \|\| >=0.2.2-0 <0.3.0` |
+| Node | `^22.19.0 \|\| >=24.9.0` (tested `24.22.1`), ESM only |
+| Peers | `@perrylink/dsh-research-core ^0.1.0`, `@deepseek-ai/cordis ^4.0.5-alpha.1`, `@deepseek-ai/dsh-tools`, `@deepseek-ai/schemastery ^3.18.5-alpha.1` |
+| Runtime dependencies | **zero** |
+
+```sh
+dsh plugin --profile <name> add @perrylink/dsh-research-core dsh-meta-analysis
+dsh --profile <name> --dump-config | grep dsh-meta-analysis
+```
+
+## Configuration
+
+| Key | Default | Meaning |
+|---|---|---|
+| `enabled` | `true` | `false` mounts nothing |
+| `model` | `both` | default pooling model (`fixed` / `random` / `both`) |
+| `level` | `0.95` | default confidence level |
+
+## Evaluation
+
+**21 tests**: special functions against known critical values (χ²(8,2)=0.9817, t(2.306,8)≈0.05, z(1.96)≈0.05, Φ⁻¹(0.975)), conversions (logOR+SE, d⇄r, d⇄OR, SMD, impossible inputs), pooling (hand-calculated fixed/random estimates, Q=8, I²=0.75, τ²=0.03 from three studies), the requested confidence level for pooled and study CIs, CI-derived SE and SE/CI disagreement rejection, invalid models/levels/studies, Egger gating at k=10, heterogeneity warnings, tool schemas, malformed-report rejection, end-to-end report, plugin contract, package contract.
+
+No benchmark is claimed: this is closed-form arithmetic whose correctness is checked against hand calculations and published critical values, not against a labelled corpus.
+
+## Known limitations (v0.1)
+
+- One analysis scale per call; multi-scale harmonisation is the caller's job.
+- DL τ² is known to be biased at small k; the plugin warns when k < 5.
+- The Egger test assumes a normal distribution of effects and is underpowered below ~10 studies.
+- No prediction interval (could be added without changing the interface).
+
+## License
+
+Apache-2.0. No third-party runtime code.

package/cordis.patch.yml

@@ -0,0 +1,13 @@
+# dsh-meta-analysis bundle patch: mount the pooling tools.
+#
+# Every key below is a Config field (Schemastery schema); invalid values fail the
+# profile load loudly. Everything is local arithmetic; no network, no store.
+- insert:
+    - id: dsh-meta-analysis
+      name: dsh-meta-analysis
+      config:
+        enabled: true
+        # Default pooling model when a call does not choose one.
+        model: both
+        # Default confidence level for pooled and study CIs.
+        level: 0.95

package/lib/config.d.ts

@@ -0,0 +1,28 @@
+/**
+ * Config schema and resolution for `dsh-meta-analysis`.
+ * @module dsh-meta-analysis/config
+ */
+import z from '@deepseek-ai/schemastery';
+/** Raw plugin config. */
+export interface Config {
+    enabled?: boolean;
+    /** Default model when a call does not choose one. */
+    model?: string;
+    /** Default confidence level. */
+    level?: number;
+}
+/** Fully resolved config. */
+export interface ResolvedConfig {
+    readonly enabled: boolean;
+    readonly model: 'fixed' | 'random' | 'both';
+    readonly level: number;
+}
+/** Schemastery schema. */
+export declare const Config: z<Config>;
+/**
+ * Validate raw values and fill explicit defaults.
+ * @param config - raw plugin config.
+ * @returns the fully resolved config.
+ */
+export declare function resolveConfig(config?: Config): ResolvedConfig;
+//# sourceMappingURL=config.d.ts.map

package/lib/config.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"config.d.ts","sourceRoot":"","sources":["../src/config.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,CAAC,MAAM,0BAA0B,CAAA;AAExC,yBAAyB;AACzB,MAAM,WAAW,MAAM;IACrB,OAAO,CAAC,EAAE,OAAO,CAAA;IACjB,qDAAqD;IACrD,KAAK,CAAC,EAAE,MAAM,CAAA;IACd,gCAAgC;IAChC,KAAK,CAAC,EAAE,MAAM,CAAA;CACf;AAED,6BAA6B;AAC7B,MAAM,WAAW,cAAc;IAC7B,QAAQ,CAAC,OAAO,EAAE,OAAO,CAAA;IACzB,QAAQ,CAAC,KAAK,EAAE,OAAO,GAAG,QAAQ,GAAG,MAAM,CAAA;IAC3C,QAAQ,CAAC,KAAK,EAAE,MAAM,CAAA;CACvB;AAED,0BAA0B;AAC1B,eAAO,MAAM,MAAM,EAAE,CAAC,CAAC,MAAM,CAI3B,CAAA;AAEF;;;;GAIG;AACH,wBAAgB,aAAa,CAAC,MAAM,GAAE,MAAW,GAAG,cAAc,CAMjE"}

package/lib/config.js

@@ -0,0 +1,26 @@
+/**
+ * Config schema and resolution for `dsh-meta-analysis`.
+ * @module dsh-meta-analysis/config
+ */
+import z from '@deepseek-ai/schemastery';
+/** Schemastery schema. */
+export const Config = z.object({
+    enabled: z.boolean().default(true),
+    model: z.string().default('both'),
+    level: z.number().default(0.95),
+});
+/**
+ * Validate raw values and fill explicit defaults.
+ * @param config - raw plugin config.
+ * @returns the fully resolved config.
+ */
+export function resolveConfig(config = {}) {
+    const model = config.model ?? 'both';
+    if (!['fixed', 'random', 'both'].includes(model))
+        throw new TypeError('model must be fixed, random or both');
+    const level = config.level ?? 0.95;
+    if (!(level > 0 && level < 1))
+        throw new TypeError('level must be between 0 and 1');
+    return { enabled: config.enabled ?? true, model: model, level };
+}
+//# sourceMappingURL=config.js.map

package/lib/config.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"config.js","sourceRoot":"","sources":["../src/config.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,CAAC,MAAM,0BAA0B,CAAA;AAkBxC,0BAA0B;AAC1B,MAAM,CAAC,MAAM,MAAM,GAAc,CAAC,CAAC,MAAM,CAAC;IACxC,OAAO,EAAE,CAAC,CAAC,OAAO,EAAE,CAAC,OAAO,CAAC,IAAI,CAAC;IAClC,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,OAAO,CAAC,MAAM,CAAC;IACjC,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,OAAO,CAAC,IAAI,CAAC;CAChC,CAAC,CAAA;AAEF;;;;GAIG;AACH,MAAM,UAAU,aAAa,CAAC,SAAiB,EAAE;IAC/C,MAAM,KAAK,GAAG,MAAM,CAAC,KAAK,IAAI,MAAM,CAAA;IACpC,IAAI,CAAC,CAAC,OAAO,EAAE,QAAQ,EAAE,MAAM,CAAC,CAAC,QAAQ,CAAC,KAAK,CAAC;QAAE,MAAM,IAAI,SAAS,CAAC,qCAAqC,CAAC,CAAA;IAC5G,MAAM,KAAK,GAAG,MAAM,CAAC,KAAK,IAAI,IAAI,CAAA;IAClC,IAAI,CAAC,CAAC,KAAK,GAAG,CAAC,IAAI,KAAK,GAAG,CAAC,CAAC;QAAE,MAAM,IAAI,SAAS,CAAC,+BAA+B,CAAC,CAAA;IACnF,OAAO,EAAE,OAAO,EAAE,MAAM,CAAC,OAAO,IAAI,IAAI,EAAE,KAAK,EAAE,KAAoC,EAAE,KAAK,EAAE,CAAA;AAChG,CAAC"}

package/lib/effects.d.ts

@@ -0,0 +1,52 @@
+/**
+ * Effect-size conversions used by `ma_convert`.
+ *
+ * The formulas are textbook ones and are named in the output, so a reader can
+ * check them:
+ * - OR/RR ⇄ log scale; SE from a CI on the analysis scale
+ * - Cohen's d ⇄ r (equal groups): r = d / √(d² + 4)
+ * - d ⇄ OR (logistic approximation): OR = exp(d·π/√3)
+ * - SMD from two means: d = (m1 − m2)/s_pooled with the Hedges-style SE
+ *
+ * Conversions are lossy (the d⇄OR link assumes a logistic model); every result
+ * carries the formula name.
+ *
+ * @module dsh-meta-analysis/effects
+ */
+/** Supported conversion names. */
+export type Conversion = 'or-to-logor' | 'logor-to-or' | 'rr-to-logr' | 'logrr-to-rr' | 'd-to-r' | 'r-to-d' | 'd-to-or' | 'or-to-d' | 'smd-from-means' | 'ci-to-se';
+/** Conversion request. */
+export interface ConvertRequest {
+    readonly conversion: Conversion;
+    /** Input value (interpretation depends on the conversion). */
+    readonly value?: number;
+    /** Optional CI on the input scale (used by or/rr/ci-to-se). */
+    readonly low?: number;
+    readonly high?: number;
+    /** Confidence level for CI-derived SE (default 0.95). */
+    readonly level?: number;
+    /** Mean/SD/n for smd-from-means. */
+    readonly mean1?: number;
+    readonly sd1?: number;
+    readonly n1?: number;
+    readonly mean2?: number;
+    readonly sd2?: number;
+    readonly n2?: number;
+}
+/** Conversion result. */
+export interface ConvertResult {
+    readonly conversion: Conversion;
+    readonly value: number;
+    readonly se?: number;
+    readonly formula: string;
+    readonly notes: readonly string[];
+}
+/** SE from a two-sided CI on the analysis scale. */
+export declare function seFromCi(low: number, high: number, level?: number): number;
+/**
+ * Convert one effect size.
+ * @param request - conversion and inputs.
+ * @returns the converted value, optional SE and the formula used.
+ */
+export declare function convert(request: ConvertRequest): ConvertResult;
+//# sourceMappingURL=effects.d.ts.map

package/lib/effects.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"effects.d.ts","sourceRoot":"","sources":["../src/effects.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;GAcG;AAIH,kCAAkC;AAClC,MAAM,MAAM,UAAU,GAClB,aAAa,GACb,aAAa,GACb,YAAY,GACZ,aAAa,GACb,QAAQ,GACR,QAAQ,GACR,SAAS,GACT,SAAS,GACT,gBAAgB,GAChB,UAAU,CAAA;AAEd,0BAA0B;AAC1B,MAAM,WAAW,cAAc;IAC7B,QAAQ,CAAC,UAAU,EAAE,UAAU,CAAA;IAC/B,8DAA8D;IAC9D,QAAQ,CAAC,KAAK,CAAC,EAAE,MAAM,CAAA;IACvB,+DAA+D;IAC/D,QAAQ,CAAC,GAAG,CAAC,EAAE,MAAM,CAAA;IACrB,QAAQ,CAAC,IAAI,CAAC,EAAE,MAAM,CAAA;IACtB,yDAAyD;IACzD,QAAQ,CAAC,KAAK,CAAC,EAAE,MAAM,CAAA;IACvB,oCAAoC;IACpC,QAAQ,CAAC,KAAK,CAAC,EAAE,MAAM,CAAA;IACvB,QAAQ,CAAC,GAAG,CAAC,EAAE,MAAM,CAAA;IACrB,QAAQ,CAAC,EAAE,CAAC,EAAE,MAAM,CAAA;IACpB,QAAQ,CAAC,KAAK,CAAC,EAAE,MAAM,CAAA;IACvB,QAAQ,CAAC,GAAG,CAAC,EAAE,MAAM,CAAA;IACrB,QAAQ,CAAC,EAAE,CAAC,EAAE,MAAM,CAAA;CACrB;AAED,yBAAyB;AACzB,MAAM,WAAW,aAAa;IAC5B,QAAQ,CAAC,UAAU,EAAE,UAAU,CAAA;IAC/B,QAAQ,CAAC,KAAK,EAAE,MAAM,CAAA;IACtB,QAAQ,CAAC,EAAE,CAAC,EAAE,MAAM,CAAA;IACpB,QAAQ,CAAC,OAAO,EAAE,MAAM,CAAA;IACxB,QAAQ,CAAC,KAAK,EAAE,SAAS,MAAM,EAAE,CAAA;CAClC;AAQD,oDAAoD;AACpD,wBAAgB,QAAQ,CAAC,GAAG,EAAE,MAAM,EAAE,IAAI,EAAE,MAAM,EAAE,KAAK,SAAO,GAAG,MAAM,CAMxE;AAED;;;;GAIG;AACH,wBAAgB,OAAO,CAAC,OAAO,EAAE,cAAc,GAAG,aAAa,CAoE9D"}