- fix README
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Wim Pomp committed 2026-10-30 19:52:39 +01:00
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# ndbioimage
[![Pytest](https://github.com/pomppervova/ndbioimage/actions/workflows/pytest.yml/badge.svg)](https://github.com/pomppervova/ndbioimage/actions/workflows/pytest.yml)
[![pytest](https://git.pomppervova.nl/wim/ndbioimage/actions/workflows/pytest.yml/badge.svg)](https://git.pomppervova.nl/wim/ndbioimage/actions?workflow=pytest.yml)
# NDBioImage
## Work in progress
Rust rewrite of python version. Read bio image formats using the bio-formats java package.
[https://www.openmicroscopy.org/bio-formats/](https://www.openmicroscopy.org/bio-formats/)
Rust rewrite of python version. Read bio image formats using some Rust code, the libczi api, and if needed the
bio-formats java package.
Exposes (bio) images as a numpy ndarray-like object (Python) or a struct that can be sliced like an ndarray Array
(Rust), but without loading the whole image into memory, reading from the file only when needed. Some metadata is read
@@ -18,20 +17,6 @@ Currently, it supports imagej tif files, czi files, micromanager tif sequences a
To transition to semver, versions before 0.1.0 were yanked from crates.io.
## Installation
```sh
pip install ndbioimage
```
### Installation with option to write mp4 or mkv:
Work in progress! Make sure ffmpeg is installed.
```sh
pip install ndbioimage[write]
```
## Usage
### Python