BioPB - AI-assisted bio-image analysis
The repo provides the core harness framework of the biopb project. The goal is to coordinate a LLM agent with a user in an interactive session to perform complex image ananlysis tasks relavent to scientific researches.
Quick Start
curl -fsSL https://biopb.org/install.sh | bash
biopb-tensor-server
An imaging data server for sharing large collections of imaging datasets, distributed and interfacing with both human users (GUI) and LLMs (API). Read More...
biopb-image-runtime
Deploy distributed image processing algorithms (e.g., large deep-learning models) on the network as services. Read More...
biopb-mcp
An LLM interface for the full biopb platform, so an AI agent can collaboate with a user on image analysis tasks. Data analysis is python code (ipykernel) with two input streams: (1) Jupyter notebook (human), or (2) chat -> LLM -> agent code. Read More...
SDK
Schema, utilities and cli for building your own workflow. Explore your data in jupyter notebook etc.
Python
pip install biopb[tensor]
Java
<dependency>
<groupId>io.github.jiyuuchc</groupId>
<artifactId>biopb</artifactId>
<version>CURRENT_VERSION</version>
</dependency>
Related Projects in BioPB
biopb-servers
Specific implementations of biopb-image-runtimes. Read More...
Contributing
Contributions are very welcome. Read the developement document first to understand the overall design architecture.
License
Distributed under the terms of the MIT license,
Issues
If you encounter any problems, please file an issue along with a detailed description.
1 maintainer
Metadata
1 maintainer
Release files for biopb 0.11.3
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| biopb-0.11.3.tar.gz | 4.4 MB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| biopb-0.11.3-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 4.6 MB
Release files / biopb-0.11.3.tar.gz
| Download URL | biopb-0.11.3.tar.gz |
|---|---|
| Size | 4.4 MB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
e836046949e349ddf503e1d7636f1fc6455ef243965fc627bfbd3ca741668c57
|
|
BLAKE2b-256 checksum How to use checksums |
2f7ab530dcbfded57f050bae2898c43a0b2e8b01c41878d9add724a9918d7983
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
Yes |
| Uploaded via |
twine/7.0.0 CPython/3.13.14
|
Provenance
Provenance describes where a file came from. On PyPI, provenance is shared via attestations, which provide a verifiable record of the build or publishing details. View details, limitations and caveats.
PyPI Publish Attestation
PyPI verified that this artifact, at this checksum, originated from the publisher listed below.
Signed by GitHub Actions, verified by PyPI on Oct 1, 2026.
Transparency logRelease files / biopb-0.11.3-py3-none-any.whl
| Download URL | biopb-0.11.3-py3-none-any.whl |
|---|---|
| Size | 261.1 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
2947049b1df9e2d10ce49ee2568c21b6eee11a7b33a7fab26e9cad0ad07b9380
|
|
BLAKE2b-256 checksum How to use checksums |
40b419e4c5a3c1d2b77ee4e3e73b42312b90f53f5635c766dfd24ed81cf898c0
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
Yes |
| Uploaded via |
twine/7.0.0 CPython/3.13.14
|
Provenance
Provenance describes where a file came from. On PyPI, provenance is shared via attestations, which provide a verifiable record of the build or publishing details. View details, limitations and caveats.
PyPI Publish Attestation
PyPI verified that this artifact, at this checksum, originated from the publisher listed below.
Signed by GitHub Actions, verified by PyPI on Oct 1, 2026.
Transparency log
