scverse.org valid
scverse
scverse is a consortium of foundational, interoperable open-source tools for single-cell and spatial omics data analysis in the life sciences.
- Authority
- 46 reach 5 · trust 5 · quality 21 · freshness 15
- Tier
- listed
- llms.txt
- https://scverse.org/llms.txt
- Sections
- 15
- Links
- 140
- Size
- 49315 bytes
- Popularity rank
- #847193
- Country
- — Publisher location unknown; CDN address excluded
- Country evidence
- No published address evidence collected yet
- Categories
- Data and analytics · Open source projects
- For agents
- Documentation: developer or product docs worth reading, nothing to call
- First seen
- 2026-10-25T18:04:21.713Z
- Last checked
- 2026-10-26T04:22:49.911Z
- Badge
Their llms.txt
The beginning of the file, from our validated copy saved 2026-10-26T04:22:46.239Z. Cached copy · Source on scverse.org
# scverse
> scverse is a consortium of foundational, interoperable open-source tools for single-cell and spatial omics data analysis in the life sciences.
scverse packages share common data structures (AnnData, MuData, SpatialData) to guarantee interoperability across the ecosystem.
Most package documentation lives on dedicated external sites, linked below.
This site (scverse.org) hosts the package index, tutorials, project governance, events, and the blog.
Every core and community package in the scverse ecosystem registry is listed below, with what it does, how to install it and where its docs live.
## Core packages
Foundational packages maintained by the scverse core team.
- [AnnData](https://anndata.scverse.org/): Standard for annotated matrices. anndata is a Python package for handling annotated data matrices in memory and on disk, positioned between pandas and xarray. anndata offers a broad range of computationally efficient features including, among others, sparse data support, lazy operations, and GPU support. Install: `pip install anndata`. Tutorials: https://anndata.scverse.org/page/tutorials/. Other languages: [anndataR](https://anndatar.scverse.org/) (R), [anndata-rs](https://scverse.org/anndata-rs/) (Rust). Tags: data structures.
- [MuData](https://mudata.readthedocs.io/): Multimodal data format. MuData is a format for annotated multimodal datasets where each modality is represented by an AnnData object. MuData’s reference implementation is in Python, and the cross-language functionality is achieved via HDF5-based .h5mu files with libraries in R and Julia. Install: `pip install mudata`. Tutorials: https://mudata.readthedocs.io/page/notebooks/quickstart_mudata.html. Other languages: [Muon.jl](https://scverse.org/Muon.jl/) (Julia). Tags: multimodal, data structures.
- [SpatialData](https://spatialdata.scverse.org/): Spatial data format. SpatialData is a data framework that comprises a FAIR storage format and a collection of python libraries for performant access, alignment, and processing of uni- and multi-modal spatial omics datasets. Install: `pip install spatialdata`. Tutorials: https://spatialdata.scverse.org/page/tutorials/notebooks/notebooks.html. Tags: spatial transcriptomics, data structures, file formats.
- [Scanpy](https://scanpy.scverse.org/): Single-cell analysis framework. Scanpy is a scalable toolkit for analyzing single-cell gene expression data built jointly with anndata. It includes preprocessing, visualization, clustering, trajectory inference and differential expression testing. The Python-based implementation efficiently deals with datasets of more than one million cells. Install: `pip install scanpy`. Tutorials: https://scanpy.scverse.org/page/tutorials.html. Tags: preprocessing, differential expression, clustering, visualization.
- [Muon](https://muon.readthedocs.io/): Multi-omics analysis framework. muon is a Python framework for multimodal omics analysis. It provides functionality for working with multimodal
…Related sites
Category suggestions: other listed sites in Data and analytics. These share a category. See the whole category →
| Domain | Title | Category | Country | Authority | llms.txt | llms-full.txt | Save |
|---|---|---|---|---|---|---|---|
| intellweb.ai | Intellweb | informational Ecommerce Productivity +1 | US | 61 | ✓ | ✓ | |
| trydingday.com | TrydingDay | interface Finance and payments Data and analytics | US | 55 | ✓ | ||
| accenture.com | Accenture AI Refinery SDK | documentation Data and analytics AI and machine learning +2 | US | 72 | ✓ | ✓ | |
| aliyun.com | Alibaba Cloud Documentation | interface AI and machine learning Infrastructure +2 | CN | 71 | ✓ | ||
| amplitude.com | Amplitude | documentation AI and machine learning Developer tools +2 | US | 71 | ✓ | ✓ | |
| ovhcloud.com | OVHcloud Documentation | documentation Data and analytics Documentation and reference +1 | CA | 71 | ✓ | ||
| canonical.com | Canonical | documentation Data and analytics Infrastructure +1 | GB | 70 | ✓ | ✓ | |
| databricks.com | Databricks | interface AI and machine learning Data and analytics +1 | — | 70 | ✓ | ✓ |
Machine-readable: GET /v1/resolve?q=scverse.org · GET /v1/domain/scverse.org · this page as Accept: application/json or text/markdown · MCP lookup_domain
Automatically discovered from public files. Inclusion does not imply endorsement or publisher participation.
Own or manage this website?
If you own or manage scverse.org, you can update its listing and review file health, discovery activity and score history.
Manage this listing — optional
What verification unlocks
See how your site is discovered—and control what agents see.
- See your website in the map
Review your indexed topics, nearby publishers sharing headings, measured listing exposure and map snapshots in a private report for your website.
- Control what agents see
Edit your listing description, tags, public contact details and additional llms.txt paths. Publish your terms for automated access, attribution and pricing.
- Make your profile eligible for search
A valid, listed, unblocked, verified profile can appear in our publisher sitemap and become eligible for search-engine visibility. Search engines decide what to index and rank.
- Appear in our llms-full.txt
Eligible verified publishers are listed by name, with their file links and summaries, in the service overview agents can read.
Free. No account registration, backlink or payment required. Public discovery remains available without verification.
Let your coding agent verify it
If your coding agent is authorized to manage this website, paste these instructions into it.
Claim my listing on Agent Web Map for scverse.org:
1. POST https://agentwebmap.com/v1/sites/scverse.org/claims and keep claim_id and claim_secret private.
2. Publish the verification line "AgentWebMap verification: <token>" (token from step 1) in https://scverse.org/llms.txt, or use the DNS, meta-tag or well-known method the response describes. This only verifies the listing; your website and domain remain yours.
3. POST https://agentwebmap.com/v1/sites/scverse.org/verify with {"claim_id": "...", "claim_secret": "..."}.
4. Save the api_key from the answer; it manages the listing (PATCH https://agentwebmap.com/v1/sites/scverse.org).
MCP equivalent: tools begin_ownership_claim, then verify_domain, at https://agentwebmap.com/mcp. Docs: https://agentwebmap.com/docs#verifyCorrections or removal requests: contact the directory.