kkwakwa's Stars
EliHei2/segger_dev
a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challenge of accurately segmenting individual cells in complex imaging datasets, leveraging a unique approach based on graph neural networks (GNNs).
TheDeanLab/navigate
navigate - open source light-sheet microscope controls
HenriquesLab/PhotoFiTT
Computational workflows to assess phototoxicity in live-cell microscopy experiments
hms-dbmi/viv
Library for multiscale visualization of high-resolution multiplexed bioimaging data on the web. Directly renders Zarr and OME-TIFF.
hms-dbmi/vizarr
A minimal Zarr image viewer based on Viv.
constantinpape/z5
Lightweight C++ and Python interface for datasets in zarr and N5 format
tlambert03/pymmcore-plus
A convenience layer on pymmcore (micro-manager) providing improved pythonic experience and event management
chiuhans111/OpticTool
A prototype of lens design tool
hallvaaw/awesome-biological-image-analysis
A curated list of software, tools, pipelines, plugins etc. for image analysis related to biological questions.
alan-turing-institute/scivision
scivision: a framework for scientific image analysis
qupath/2022-qupath-hackathon
From 26-29 April 2022
jupyter/papyri
acycliq/storm-control
micro-manager/pymmcore
Python bindings for MMCore, Micro-Manager's device control layer
pymmcore-plus/napari-micromanager
GUI interface between napari and micromanager powered by pymmcore-plus and pymmcore-widgets
TheJacksonLaboratory/ezomero
A module with convenience functions for writing Python code that interacts with OMERO.
jwasham/coding-interview-university
A complete computer science study plan to become a software engineer.
JaneliaSciComp/BigStitcher-Spark
Running compute-intense parts of BigStitcher distributed
rougier/scientific-visualization-book
An open access book on scientific visualization using python and matplotlib
matplotlib/cheatsheets
Official Matplotlib cheat sheets
haesleinhuepf/napari-workflow-inspector
Inspect relationships between napari-plugins in active workflows.
jwkvam/celluloid
:movie_camera: Matplotlib animations made easy
uetke/experimentor
Python package for controlling experiments
ZhuangLab/storm-control
Microscope control software
WU-BIMAC/MicroMetaApp-React
This is the React implementation of Micro-Meta App, Microscopy Metadata for the real world!
soniaionescu/rapidStacks
Image acquisition routine for the Scanning Lab at the Allen Institute for Brain Science
pawlowska/terastitcher_files_coversions
python scripts for converting uManager raw data into form readable by terastitcher
QI2lab/OPM
Control, reconstruction, and analysis code for oblique plane microscopy.
CSBDeep/CSBDeep
Image restoration for fluorescence microscopy
yfukai/m2stitch
MIST-inspired microscope image stitching package