50 dependents
| Package | Description | Downloads/month |
|---|---|---|
| Full-featured nd2 (Nikon NIS Elements) file reader for python. Outputs to numpy,... | 33K | |
| Typing, base classes, and more for BioIO projects. | 32K | |
| SpatialData IO for common techs | 25K | |
| Image reading, metadata management, and image writing for Microscopy images in P... | 22K | |
| Pure python/C++ micro-manager ecosystem | 21K | |
| A BioIO reader plugin for reading Tiff files in the OME format. | 14K | |
| A BioIO reader plugin for reading CZI files. | 11K | |
| Interface to the Bioformats Java library | 10K | |
| Python library for reading tiles from wsi tiff-files. | 5K | |
| A BioIO reader plugin for reading bioformats formatted images. | 4K | |
| A napari plugin for drawing PALM RoboSoftware elements using StarDist segmentati... | 4K | |
| A python toolkit for fluorescence microscopy. | 4K | |
| All the tools used by the Towbin Lab ! | 3K | |
| Bio image reading, metadata and some affine registration. | 3K | |
| 2K | ||
| Analyze fluorescence fluctuation spectroscopy data with array detectors | 2K | |
| Modern Bio-Formats wrapper with clean lazy Python API | 2K | |
| FIBSEM Operating System | 2K | |
| A BioIO reader plugin for reading Tiff files in the OME format. | 2K | |
| Piecewise alignment for layers of mosaics | 2K | |
| A project to read microscopy files. | 1K | |
| image2image-reader plugin | 1K | |
| Napari plugin for custom analysis and visualization of lattice lightsheet and Ob... | 1K | |
| Automated organelle segmentation, tracking, and hierarchical feature extraction ... | 1K | |
| A set of utilities for exporting a transfer packet from an OMERO server and impo... | 1K | |
| Convert PhenoImager output .tif tiles to a single OME-TIFF with correct metadata | 932 | |
| Basic data and protocols objects for fluorescence microscopy processing within S... | 850 | |
| 819 | ||
| Python package for deep learning based image to image transformation | 812 | |
| SPFluo package | 741 | |
| Napari plugin for analysing and visualizing lattice lightsheet and Oblique Plane... | 592 | |
| multimodal whole slide image registration in a graph structure | 561 | |
| restructures MACSima raw .tif tiles into an .ome.tif stack ready to be used by A... | 514 | |
| A collection of fractal tasks to convert HCS Plates to OME-Zarr | 408 | |
| A BioIO reader plugin for reading tiled tiff files in the OME format. | 336 | |
| 328 | ||
| Python Calcium Recording Analysis and Inference Toolbox | 310 | |
| 293 | ||
| A collection of Python scripts for iSCAT microscopy data analysis | 274 | |
| A collection of tools and helpers to work with the JetRaw compression libraries. | 265 | |
| Comprehensive spatial transcriptomics analysis library with advanced segmentatio... | 237 | |
| A Python library for multiplex imaging analysis | 224 | |
| Segments and tracks bacteria | 177 | |
| A package for converting CZI to TIFF files | 176 | |
| utitilies for codex image sets | 160 | |
| staging of imc images for mcmicro | 151 | |
| Background subtraction for COMET platform | 148 | |
| Modified version of Valis used for HEST. Please visit the original Valis repo fo... | 115 | |
| Python processing and analysis of Time-Correlated Single Photon Counting (TCSPC)... | 113 | |
| A dreamy 2-photon imaging processing pipeline. | 109 |
