xby-anndata
Run the following command in DeepSeek Harness:
dsh plugin install xby-skill/xby-anndata
Paste the following prompt into your AI chat to install this plugin:
In DeepSeek Harness, run dsh plugin install xby-skill/xby-anndata to install the plugin; the project repo is at https://github.com/xby-skill/xby-anndata .
About this plugin
Biomedical and single-cell researchers spend a lot of time inspecting AnnData objects: checking dimensions, browsing column distributions, verifying metadata. xby-anndata folds these routine lookups into a chat interface via the MCP protocol, so you can explore dataset structure without leaving the conversation.
The plugin covers four core operations: viewing the raw data of an AnnData object, pulling a summary from a local file or remote URL, computing descriptive statistics (count, mean, std, min, max, value counts) on any attribute or attribute value with optional filtering, and setting an API key in-chat that persists across restarts.
It is aimed at researchers and data engineers working with AnnData-formatted single-cell transcriptomics, spatial omics, or multi-omics integration pipelines. If you want to offload repetitive structural checks to a conversational assistant and keep your focus on downstream modelling and visualisation, this plugin cuts down context-switching overhead considerably.
Use Cases
- Inspect AnnData object structure and dimensions in chat
- Run descriptive statistics on gene or cell-type attributes
- Fetch a summary from a local file or remote URL
- Filter by sample then compute per-attribute distributions
Best For
- Researchers in single-cell transcriptomics or spatial omics
- Data engineers working with AnnData multi-omics datasets
- Bioinformatics teams that prefer conversational data exploration
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