Open source alternatives to anndata
24 open source AI Skills apps to use instead, best rated first.
Top picks
- G
github-ops
Launchgithub-ops is an agent skill from the ECC collection by affaan-m, listed on skills.sh. It manages a GitHub repository with a focus on community health, CI reliability and the experience of contributors. It covers triaging issues by classify
Open source
- O
opensource-pipeline
Launchopensource-pipeline is an agent skill from the ECC collection by affaan-m, listed on skills.sh. It prepares a private project for safe public release through a three-stage pipeline. The fork stage strips secrets from a copy. The sanitise st
Open source
- A
andrej-karpathy-skills
Launchandrej-karpathy-skills is a single CLAUDE.md file from the multica-ai project that is meant to improve how Claude Code behaves on coding tasks. It is derived from Andrej Karpathy's public observations about LLM coding pitfalls. The file dis
Open source
- M
microsoft/markitdown
Launchmarkitdown-mcp is the MCP server package for MarkItDown, Microsoft's tool for converting many file formats to Markdown for language models. It is a lightweight server that runs over stdio, Streamable HTTP or SSE, and exposes one tool, conve
Open source
- O
od-contribute
Launchod-contribute is an agent skill in the OpenDesign project that provides a guided, one-click contribution flow to the OpenDesign repository, written so that people without a coding background can send a real pull request. It is locked to the
Open source
- G
github-deep-research
Launchgithub-deep-research is an agent skill from the DeerFlow project that researches a single GitHub repository in several rounds and writes a report in Markdown. It is for requests that need more than a README summary, such as a comprehensive
Open source
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by shareAI-lab - A really interesting analysis of how coding agents like Claude
About anndata
anndata
Handles annotated matrices in single-cell analysis, .h5ad and Zarr files
anndata is an agent skill for working with AnnData, a Python package for annotated data matrices. An AnnData object stores measurements in a main matrix, with metadata for observations and variables and multi-dimensional annotations alongside. It began in single-cell genomics through Scanpy and is now a general framework for any annotated data that needs efficient storage and analysis. The skill covers creating, reading and writing AnnData objects, working with h5ad and Zarr files, and performing single-cell RNA-seq analysis. It also covers large datasets with sparse matrices or backed mode, concatenating datasets or experimental batches, subsetting and filtering, and integrating with scanpy, scvi-tools and other tools in the scverse ecosystem. Use it when a task involves those data structures or formats. The skill is part of the k-dense-ai scientific agent skills repository on GitHub, which has about 49,600 stars. The listing shows it as free, and it has about 1,800 installs. Its security audits show passes from Gen Agent Trust Hub, Socket and Snyk. Install it with npx skills add https://github.com/k-dense-ai/scientific-agent-skills --skill anndata.
- Price
- Free
- Made by
- k-dense-ai
- Category
- AI Skills
- Website
- github.com/k-dense-ai/scientific-agent-skills/anndata