- fix README
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Wim Pomp committed 2026-10-30 19:52:39 +01:00
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# ndbioimage [![pytest](https://git.pomppervova.nl/wim/ndbioimage/actions/workflows/pytest.yml/badge.svg)](https://git.pomppervova.nl/wim/ndbioimage/actions?workflow=pytest.yml)
[![Pytest](https://github.com/pomppervova/ndbioimage/actions/workflows/pytest.yml/badge.svg)](https://github.com/pomppervova/ndbioimage/actions/workflows/pytest.yml)
# NDBioImage
## Work in progress ## Work in progress
Rust rewrite of python version. Read bio image formats using the bio-formats java package. Rust rewrite of python version. Read bio image formats using some Rust code, the libczi api, and if needed the
[https://www.openmicroscopy.org/bio-formats/](https://www.openmicroscopy.org/bio-formats/) 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 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 (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. 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 ## Usage
### Python ### Python