https://github.com/zehua0417/anndata.jl

Anndata for Julia
https://github.com/zehua0417/anndata.jl

anndata bioinformatics julia single-cell

Last synced: 6 days ago
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Anndata for Julia

• Host: GitHub
• URL: https://github.com/zehua0417/anndata.jl
• Owner: zehua0417
• License: apache-2.0
• Created: 2024-12-20T09:32:26.000Z (14 days ago)
• Default Branch: main
• Last Pushed: 2024-12-20T11:58:31.000Z (14 days ago)
• Last Synced: 2024-12-20T12:33:32.190Z (14 days ago)
• Topics: anndata, bioinformatics, julia, single-cell
• Language: Julia
• Homepage:
• Size: 22.5 KB
• Stars: 0
• Watchers: 1
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
# AnnData.jl

AnnData.jl is a Julia package that provides robust support for working with AnnData, a common data structure used in single-cell bioinformatics. This package is derived from the [Muon.jl](https://github.com/scverse/Muon.jl) library, but specifically focuses on handling AnnData objects, without including functionality for multi-omics data types.

By extracting the AnnData-specific components from Muon.jl, we aim to provide a lightweight and efficient package for users who only need to work with AnnData, while maintaining compatibility with Python's AnnData (via the `h5ad` file format).

## Features

- Load and save AnnData objects (`h5ad` files).

- Manipulate AnnData matrices, metadata, and annotations in Julia.

- Seamless interoperability with Python's AnnData ecosystem (e.g., Scanpy).

## Why AnnData.jl?

The [Muon.jl](https://github.com/scverse/Muon.jl) package is a comprehensive toolkit for multi-omics data analysis, but not all users require multi-omics support. AnnData.jl was created to focus solely on the core AnnData functionality, providing:

- A smaller dependency footprint.

- Simplified workflows for single-cell analysis using AnnData objects.

## todo

docs