wangliyuan72

wangliyuan72's Stars

• tqdm/tqdm

  :zap: A Fast, Extensible Progress Bar for Python and CLI

  Language:Python29.1k2101k1.4k

• conda-forge/miniforge

  A conda-forge distribution.

  Language:Shell6.9k56401347

• jrjohansson/scientific-python-lectures

  Lectures on scientific computing with python, as IPython notebooks.

  Language:Jupyter Notebook3.5k308251.8k

• qupath/qupath

  QuPath - Open-source bioimage analysis for research

  Language:Java1.1k56826285

• imagej/pyimagej

  Use ImageJ from Python

  Language:Python4832325582

• clEsperanto/pyclesperanto_prototype

  GPU-accelerated bio-image analysis focusing on 3D+t microscopy image data

  Language:Jupyter Notebook2171414146

• dovahcrow/patchify.py

  A library that helps you split image into small, overlappable patches, and merge patches into original image.

  Language:Python21731826

• SchmollerLab/Cell_ACDC

  A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data

  Language:Python141454722

• ksugar/qupath-extension-sam

  QuPath extension for Segment Anything Model (SAM)

  Language:Java9321415

• cytomining/pycytominer

  Python package for processing image-based profiling data

  Language:Python84622336

• SBU-BMI/wsinfer

  🔥 🚀 Blazingly fast pipeline for patch-based classification in whole slide images

  Language:Python63612112

• multiview-stitcher/multiview-stitcher

  A toolbox for registering / fusing / stitching large multi-view / multi-positioning image datasets in 2-3D.

  Language:Jupyter Notebook614198

• sofroniewn/napari-training-course

  Lectures for a napari training course

  Language:Jupyter Notebook508321

• BIOP/ijp-imagetoatlas

  ABBA - Aligning Big Brains and Atlases (2D sections to 3D atlas registration)

  Language:Java4972178

• MouseLand/cellpose-napari

  napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool

  Language:Python4872922

• morphonets/SNT

  The ImageJ framework for quantification of neuronal anatomy

  Language:Java44610017

• aelefebv/nellie

  Nellie: Automated organelle segmentation, tracking, and hierarchical feature extraction in 2D/3D live-cell microscopy

  Language:Python34394

• ciccalab/SIMPLI

  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.

  Language:R34655

• grishkam/QuickFigures

  QuickFigures is a toolset for creating scientific figures see publication for details

  Language:Java333166

• piximi/piximi

  Language:TypeScript3253855

• GuillaumeMougeot/biom3d

  Easy Volumetric Segmentation with Deep Learning

  Language:Python22355

• dterstege/FASTMAP

  ImageJ Plugin for Flexible Atlas Segmentation Tool for Multi-Area Processing

  Language:ImageJ Macro20405

• nicjac/PHANTAST-FIJI

  Repository for the FIJI/ImageJ implementation of the phase contrast microscopy segmentation toolbox (PHANTAST)

  Language:Java17734

• AhsenChaudhry/Mitochondria-Analyzer

  Mitochondria Analyzer

  Language:ImageJ Macro142162

• sebi06/czitools

  This repository provides a collection of tools to simplify reading CZI (Carl Zeiss Image) pixel and metadata in Python. In addition it also contains other useful utilities to visualize CZI images inside Napari.

  Language:Python9284

• bioimage-io/bioengine

  Language:Jupyter Notebook8450

• jni/halfway-to-i2k-skimage-napari

  Repo for halfway to i2k workshop: Fundamentals of image analysis in Python with scikit-image, napari, and friends

  Language:Python620

• ADanckaert/MuscleJ2

  MuscleJ2: a rebuilding of MuscleJ with new features for high-content analysis of skeletal muscle immunofluorescence slides

  5360

• True-North-Intelligent-Algorithms/deconvolution-gpu-dl-course

  Course: Exploring the Intersection of Deconvolution, GPU Computing, and Deep Learning

  Language:Shell5201

• bramcal/Q-VAT

  Quantitative Vascular Analysis Tool

  Language:ImageJ Macro3201