bioimaging
There are 32 repositories under bioimaging topic.
ome/ngff
Next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
arttumiettinen/pi2
C++ library and command-line software for processing and analysis of terabyte-scale volume images locally or on a computing cluster.
chanzuckerberg/napari-hub
Discover, install, and share napari plugins
ciccalab/SIMPLI
SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
BodenmillerGroup/cytomapper
R package for visualization of highly multiplexed imaging data
czbiohub-sf/iohub
Pythonic and parallelizable I/O for N-dimensional imaging data with OME metadata
bioimage-io/core-bioimage-io-python
Python libraries for loading, running and packaging bioimage.io models
TileDB-Inc/TileDB-BioImaging
Package providing bioimaging functionality using TileDB. Source of the tiledb-bioimg Python package.
anthonytec2/xrayscanner
Python 3 x-ray simulator
NL-BioImaging/biomero
BIOMERO - A python library for easy connecting between OMERO (jobs) and a Slurm cluster
rezacsedu/DeepCOVIDExplainer
DeepCOVIDExplainer: Explainable COVID-19 Diagnosis from Chest X-ray Images
TileDB-Inc/napari-tiledb-bioimg
TileDB BioImaging plugin for Napari
AlanRace/biquinho
Visualisation software for imaging mass cytometry data
Acto3D/Acto3D
3D volume rendering software for fluorescence microscopy
NL-BioImaging/biomero-scripts
Scripts for use with BIOMERO
ggirelli/radiantkit
A Python3 Radial Image Analysis Toolkit
Yu-Group/molecular-partner-prediction
Predicting successful CME events using only clathrin markers. 🦠📈
zarr-developers/zarr-developers.github.io
Zarr Homepage
AlanRace/imc-rs
Rust library for reading imaging mass cytometry (IMC) data stored in .mcd files.
aquilesC/background-free
Paper on how to supress background while imaging gold nanorods through the use of the anti-Stokes emission.
ggirelli/SpectraScope
Interactive interface to visualize spectra and filter sets for any microscope. Easily customizable.
ome/B3D
Clone of https://git.embl.de/balazs/B3D
psobolewskiPhD/JAX_NEBioimaging_napari_community_slides
Slides for a presentation about contributing to the napari community
BioPOLIM/hyPIRana
Analysis software for hyperspectral scans and spectra acquired in mid-IR photo-induced force microscopy
sule213/anavo
Analysis of variance (ANOVA) is a collection of statistical models and their associated estimation procedures (such as the "variation" among and between groups) used to analyze the differences among means.
Turku-BioImaging/omero-docker
Deploy an OMERO server using Docker Compose
wenzel-lab/wenzel-lab.github.io
Jekyll page for Wenzel Lab webpage. View the page at https://wenzel-lab.github.io
FabrizioMusacchio/ZARR_tests
Python code that I used in my blog posts on the Zarr file format.
ome/conda-omero-py
OMERO.py Conda package
YogiOnBioinformatics/Bioimaging-Informatics-Machine-Learning-for-Cancerous-Breast-Cell-Detection
Worked with Dr. Shandong Wu at University of Pittsburgh to use software to improve outcomes for breast cancer risk detection.
zarr-developers/blog
Zarr Official Blog