# OmicVerse Documentation

## A single pipeline for the entire transcriptome universe

![omicverse-abstract](https://raw.githubusercontent.com/Starlitnightly/ImageStore/main/omicverse_img/background_light.png)

**OmicVerse v2** is a unified Python framework for modern transcriptomics and multi-omics analysis.
It brings together **bulk RNA-seq**, **single-cell**, **spatial transcriptomics**, **visualization**,
**model-based analysis**, and **AI-assisted workflows** in one package.

If you find OmicVerse useful for your research, please consider citing the
[OmicVerse manuscript](https://www.nature.com/articles/s41467-024-50194-3).

::::{grid} 1 2 3 3
:gutter: 2

:::{grid-item-card} Installation {octicon}`plug;1em;`
:link: Installation_guild
:link-type: doc

New to _omicverse_? Set up your environment with conda, pip, or Docker.
:::

:::{grid-item-card} Tutorials {octicon}`play;1em;`
:link: tutorials/index
:link-type: doc

Step-by-step tutorials covering bulk, single-cell, spatial, and AI-assisted workflows.
:::

:::{grid-item-card} API Reference {octicon}`book;1em;`
:link: api/index
:link-type: doc

Detailed description of every public function and class in OmicVerse.
:::

:::{grid-item-card} OmicClaw {octicon}`cpu;1em;`
:link: omicclaw/index
:link-type: doc

Deploy OmicVerse as a conversational AI agent via Telegram, Feishu, MCP, and more.
:::

:::{grid-item-card} Discussion {octicon}`megaphone;1em;`
:link: https://github.com/Starlitnightly/omicverse/discussions

Need help? Reach out on our GitHub Discussions forum.
:::

:::{grid-item-card} GitHub {octicon}`mark-github;1em;`
:link: https://github.com/Starlitnightly/omicverse

Find a bug? Interested in contributing? Check out our GitHub.
:::
::::

```{toctree}
:hidden: true
:maxdepth: 3
:titlesonly: true

Installation_guild
tutorials/index
omicclaw/index
api/index
Release_notes
Developer_guild
GPU_supported_registry_functions
Discussion <https://github.com/Starlitnightly/omicverse/discussions>
GitHub <https://github.com/Starlitnightly/omicverse>
```