deepseekplugins

DeepSeek Harness plugin

dsh-ezprot-plugin

Plug-and-play proteomics analysis bundle for DeepSeek Harness: auto-managed R 4.4 runtime, step-wise traceable pipeline (normalize / PCA / batch / DEA / enrichment / GSEA), cached GO-KEGG annotation

Workflow & Automation
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Source facts

Repository
YukunR/dsh-ezprot-plugin
Latest update
Aug 21, 2026
Category
Workflow & Automation
GitHub stars
1
Format
plugin
Catalog evidence
Upstream dsh.bundle evidence
Evidence path
package.json#dsh.bundle
Checked against
0.1.0-rc.8
Upstream check date
2026-08-20

This evidence comes from the upstream catalog. This site has not installed, run, or security-reviewed the plugin.

Install

Start with a prompt that asks an agent to review the GitHub repository and source. Switch to the command if you want to install it yourself.

Copy this prompt into DSH, Codex, or another agent and ask it to review the GitHub repository and source first.

Do not install or run any commands yet. Read this plugin's GitHub repository, README, and relevant source code. Then answer the questions below clearly and directly so I can decide whether it fits my needs:

1. What is this plugin, and what problem does it solve?
2. Who is it for, and what are its typical use cases?
3. How is it used after installation? Include one minimal example.
4. What known limitations or privacy, security, compatibility, or maintenance risks does it have?
5. Give a clear recommendation: recommend, conditionally recommend, or do not recommend, with reasons.

Distinguish statements documented by the repository, inferences from source code, and unknowns. If evidence is insufficient, say so explicitly. Do not guess or simply repeat the README.

GitHub: https://github.com/YukunR/dsh-ezprot-plugin
Plugin: dsh-ezprot-plugin
Author: YukunR

Check the source files

Read the README and other files from this plugin directory before installing.

File explorer4 files
README.mdSource · read only
README language

dsh-ezprot-plugin

English | 中文

A plug-and-play proteomics analysis plugin for DeepSeek Harness. It wraps a full protein-expression analysis workflow — normalization → PCA → batch correction → differential analysis → GO/KEGG enrichment → GSEA — behind a conversation: give the agent your data file, answer a few questions (which columns are what, which groups to compare), and the plugin prepares everything automatically and walks through every step with visible summaries and figures, ending with an interpretation report.

No R or terminal knowledge required: the plugin detects or silently installs its own R 4.4.0 runtime and package library on first use (one-time, ~10–20 min). Docker is optional: the plugin switches to a Docker backend automatically when a usable local R cannot be set up, and can run the one-time GO/KEGG background build inside the image on network-restricted machines.

Install

From the DSH Desktop plugin market

DSH Desktop ships an in-app plugin market. Add our catalog source once, then install from the UI:

1. Settings → Plugins → Plugin market → Sources → Add standard source. 2. Enter https://dsh-plugin.yukunr.top/catalog-source.json. 3. Open Discover, search ezprot, and install dsh-ezprot-plugin from the card — Desktop re-verifies the exact version and the active profile before installing. 4. Restart Desktop and start a session: the proteomics_* tools are ready.

A step-by-step guide with screenshots: [安装指南 (中文)](docs/install.zh.md).

From the command line

Prerequisites: Node.js (bundles npx) and pnpm — npm install -g pnpm.

Requires the dsh CLI (Windows / macOS / Linux), one command:

npx @deepseek-ai/dsh plugin --profile web add dsh-ezprot-plugin@0.1.1

If dsh is already installed globally, drop the npx @deepseek-ai/ prefix:

dsh plugin --profile web add dsh-ezprot-plugin@0.1.1

Then restart dsh web. Every session's agent gains the proteomics_* tools.

Usage

Just talk to the agent. For example:

> My proteomics data is at D:\my-experiment\origin_data.txt with sample groups in D:\my-experiment\sample_info.txt, mouse samples. Compare HC and HD against NC.

The agent will inspect and QC your data, confirm the comparisons with you, run the analysis step by step, and write an interpretation report (top proteins, enriched pathways, candidate targets). Detailed instructions: [biologist's guide](docs/biologist-guide.md) ([中文](docs/biologist-guide.zh.md)).

Development

See [CONTRIBUTING.md](CONTRIBUTING.md).

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