sylvainprigent/napari-stracking

Napari plugin for particles tracking

Language: Python - Size: 70.2 MB - Last synced: about 14 hours ago - Pushed: about 15 hours ago - Stars: 6 - Forks: 5

sebi06/python_envs

This repository contains a collection of YML and/or requirments file and tricks to create Python Environments

Size: 53.7 KB - Last synced: 5 days ago - Pushed: 6 days ago - Stars: 0 - Forks: 1

PolusAI/bfio

Interface to the Bioformats Java library

Language: Python - Size: 60.4 MB - Last synced: 6 days ago - Pushed: 7 days ago - Stars: 10 - Forks: 8

chanzuckerberg/napari-hub

Discover, install, and share napari plugins

Language: TypeScript - Size: 8.52 MB - Last synced: 23 days ago - Pushed: 23 days ago - Stars: 48 - Forks: 19

scverse/napari-spatialdata

Interactive visualization of spatial omics data

Language: Python - Size: 25.7 MB - Last synced: 14 days ago - Pushed: 15 days ago - Stars: 33 - Forks: 11

samthiele/napari-hippo

A large and somewhat ugly plugin for viewing and analysing hyperspectral data in Napari

Language: Python - Size: 1.68 MB - Last synced: 14 days ago - Pushed: 14 days ago - Stars: 3 - Forks: 1

tlambert03/napari-omero

Browse your OMERO database from within napari.

Language: Python - Size: 9.66 MB - Last synced: 2 days ago - Pushed: 2 days ago - Stars: 33 - Forks: 10

haesleinhuepf/napari-process-points-and-surfaces

Process and analyze surfaces using vedo in napari.

Language: Python - Size: 185 MB - Last synced: 23 days ago - Pushed: 24 days ago - Stars: 21 - Forks: 4

haesleinhuepf/napari-pillow-image-processing

Process images using pillow from within napari.

Language: Python - Size: 9.68 MB - Last synced: 23 days ago - Pushed: over 2 years ago - Stars: 0 - Forks: 0

haesleinhuepf/napari-mouse-controls

Control zoom, slicing and contrast windowing with mouse and touch screen

Language: Python - Size: 12 MB - Last synced: 23 days ago - Pushed: over 2 years ago - Stars: 1 - Forks: 1

AllenCell/napari-allencell-segmenter

A plugin that enables image segmentation provided by Allen Institute for Cell Science

Language: Python - Size: 841 KB - Last synced: 7 days ago - Pushed: 6 months ago - Stars: 16 - Forks: 6

haesleinhuepf/napari-skimage-regionprops

Feature extraction for labeled objects in images using regionprops from scikit-image

Language: Python - Size: 38.3 MB - Last synced: 14 days ago - Pushed: about 1 month ago - Stars: 47 - Forks: 12

BiAPoL/napari-clusters-plotter

A napari plugin for clustering objects according to their properties.

Language: Jupyter Notebook - Size: 94.4 MB - Last synced: 23 days ago - Pushed: 24 days ago - Stars: 65 - Forks: 9

junlabucsd/napari-mm3

Mother machine image analysis through napari

Language: Jupyter Notebook - Size: 19.6 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 7 - Forks: 4

deep-finder/napari-deepfinder

A napari plugin for the DeepFinder library which includes display, annotation, target generation, segmentation and clustering functionalities. An orthoslice view has been added for an easier visualisation and annotation process.

Language: Python - Size: 2.99 MB - Last synced: 3 days ago - Pushed: 5 days ago - Stars: 3 - Forks: 1

haesleinhuepf/napari-cupy-image-processing

Language: Python - Size: 10.3 MB - Last synced: 23 days ago - Pushed: 10 months ago - Stars: 19 - Forks: 0

haesleinhuepf/napari-accelerated-pixel-and-object-classification

GPU-accelerated, OpenCL-based Random Forest Classifiers for pixel and labeled object classification in napari.

Language: Python - Size: 47.7 MB - Last synced: 23 days ago - Pushed: 7 months ago - Stars: 41 - Forks: 5

haesleinhuepf/devbio-napari

Language: Python - Size: 1.67 MB - Last synced: 23 days ago - Pushed: 3 months ago - Stars: 39 - Forks: 12

gatoniel/napari-3d-ortho-viewer

Napari 3D Ortho Viewer - an ortho viewer for napari for 3D images

Language: Python - Size: 2.68 MB - Last synced: 27 days ago - Pushed: 7 months ago - Stars: 8 - Forks: 2

stardist/stardist-napari

StarDist plugin for napari

Language: Python - Size: 1.67 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 32 - Forks: 10

wisstock/domb-napari

napari plugin for analyzing fluorescence-labeled proteins redistribution

Language: Python - Size: 18.3 MB - Last synced: 15 days ago - Pushed: about 2 months ago - Stars: 1 - Forks: 0

shibarjun/napari-findaureus

napari-findaureus: A tool designed to identify bacteria in infected bone tissue images obtained via Confocal Laser Scanning Microscopy (CLSM).

Language: Python - Size: 111 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 0 - Forks: 0

brainglobe/napari-brainreg-standard 📦

Visualise brainreg registration output in standard space

Language: Python - Size: 13.5 MB - Last synced: 28 days ago - Pushed: almost 4 years ago - Stars: 7 - Forks: 0

brainglobe/cellfinder-napari 📦

Efficient cell detection in large images using cellfinder in napari

Language: Python - Size: 34.3 MB - Last synced: 16 days ago - Pushed: 5 months ago - Stars: 24 - Forks: 6

LIDS-UNICAMP/grabber

Grabber: A Tool to Improve Convergence in Interactive Image Segmentation

Language: Python - Size: 31.4 MB - Last synced: 6 days ago - Pushed: about 1 year ago - Stars: 15 - Forks: 2

ome/napari-ome-zarr

A napari plugin for zarr backed OME-NGFF images

Language: Python - Size: 117 KB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 24 - Forks: 20

TileDB-Inc/napari-tiledb-bioimg

TileDB BioImaging plugin for Napari

Language: Python - Size: 10.2 MB - Last synced: 26 days ago - Pushed: about 1 year ago - Stars: 7 - Forks: 0

volume-em/empanada-napari

Panoptic segmentation algorithms for 2D and 3D electron microscopy in napari

Language: Python - Size: 8.2 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 15 - Forks: 7

haesleinhuepf/napari-folder-browser

Language: Python - Size: 9.28 MB - Last synced: 8 days ago - Pushed: 2 months ago - Stars: 6 - Forks: 2

matplotlib/napari-matplotlib

Linking napari layers with Matplotlib plots

Language: Python - Size: 8.93 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 39 - Forks: 18

hanjinliu/napari-macrokit

Executable script generation for napari plugins

Language: Python - Size: 2.9 MB - Last synced: 24 days ago - Pushed: over 1 year ago - Stars: 3 - Forks: 1

haesleinhuepf/napari-script-editor

A python script editor plugin for napari

Language: Python - Size: 34.7 MB - Last synced: 23 days ago - Pushed: 11 months ago - Stars: 10 - Forks: 0

janclemenslab/napari-video

Napari plugin for working with video files.

Language: Jupyter Notebook - Size: 26.4 KB - Last synced: 23 days ago - Pushed: almost 2 years ago - Stars: 11 - Forks: 3

clEsperanto/napari_pyclesperanto_assistant

GPU-accelerated general purpose image processing and image analysis in napari

Language: Python - Size: 116 MB - Last synced: 18 days ago - Pushed: 6 months ago - Stars: 31 - Forks: 9

SuperElastix/elastix-napari

A napari plugin for itk-elastix

Language: Python - Size: 158 KB - Last synced: 3 months ago - Pushed: 12 months ago - Stars: 32 - Forks: 8

haesleinhuepf/napari-segment-blobs-and-things-with-membranes

A plugin based on scikit-image for segmenting nuclei and cells based on fluorescent microscopy images with high intensity in nuclei and/or membranes.

Language: Python - Size: 8.09 MB - Last synced: 23 days ago - Pushed: 2 months ago - Stars: 20 - Forks: 8

arkitektio-apps/mikro-napari

napari within the mikro environment

Language: Python - Size: 1.04 MB - Last synced: 24 days ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

EPFL-Center-for-Imaging/napari-rembg

AI-based image segmentation in Napari.

Language: Python - Size: 54.6 MB - Last synced: about 2 months ago - Pushed: 4 months ago - Stars: 1 - Forks: 0

haesleinhuepf/napari-blender-bridge

Transfer surface layers between Napari and Blender.

Language: Python - Size: 13.4 MB - Last synced: 3 days ago - Pushed: about 1 year ago - Stars: 8 - Forks: 1

haesleinhuepf/napari-layer-details-display

Language: Python - Size: 261 KB - Last synced: 23 days ago - Pushed: over 1 year ago - Stars: 2 - Forks: 1

Chris-N-K/napari-time-series-plotter

A napari Plugin for visualisaton of pixel values over time (t+ nD) as graphs.

Language: Python - Size: 32.2 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 10 - Forks: 5

haesleinhuepf/napari-laptrack

Tracking particles in Napari, using the LapTrack library

Language: Python - Size: 8.59 MB - Last synced: 23 days ago - Pushed: 12 months ago - Stars: 6 - Forks: 1

haesleinhuepf/napari-animated-gif-io

Open and save 3D image stacks as animated gifs in napari

Language: Python - Size: 6.57 MB - Last synced: 3 days ago - Pushed: about 1 year ago - Stars: 4 - Forks: 2

haesleinhuepf/napari-simpleitk-image-processing

Process images using SimpleITK in napari

Language: Python - Size: 8.53 MB - Last synced: 23 days ago - Pushed: about 1 year ago - Stars: 18 - Forks: 2

DKFZ-TMTRR/Partial-Aligner

Partial-Aligner is a napari plugin used for manual registration and histology slide repair

Language: Python - Size: 2.34 MB - Last synced: 27 days ago - Pushed: over 2 years ago - Stars: 1 - Forks: 0

PolarizedLightFieldMicroscopy/napari-LF

Light field imaging plugin for napari

Language: Python - Size: 103 MB - Last synced: 5 days ago - Pushed: about 1 year ago - Stars: 9 - Forks: 3

MBPhys/Image-Composer

A napari plugin in order to compose a background image with a foreground image

Language: Python - Size: 13.7 KB - Last synced: 27 days ago - Pushed: over 2 years ago - Stars: 1 - Forks: 0

EPFL-Center-for-Imaging/napari-magic-wand

"Magic wand" annotation in Napari.

Language: Python - Size: 26.2 MB - Last synced: 25 days ago - Pushed: 5 months ago - Stars: 1 - Forks: 0

EPFL-Center-for-Imaging/napari-orientationpy

Analyze orientations in 2D, 3D, and RGB images in Napari.

Language: Python - Size: 9.54 MB - Last synced: 20 days ago - Pushed: 5 months ago - Stars: 0 - Forks: 0

GuignardLab/napari-sc3D-viewer

A plugin to visualise 3D spatial single cell omics

Language: Python - Size: 38.4 MB - Last synced: about 5 hours ago - Pushed: 2 months ago - Stars: 18 - Forks: 2

hereariim/napari-aphid

This directory contains all the elements and structure of the napari-aphid plugin

Language: Python - Size: 265 MB - Last synced: 28 days ago - Pushed: 11 months ago - Stars: 3 - Forks: 0

brainglobe/brainglobe-napari-io

Read and write files from the BrainGlobe neuroanatomy suite

Language: Python - Size: 25.4 MB - Last synced: 6 months ago - Pushed: 6 months ago - Stars: 10 - Forks: 3

super-resolution/napari-locan

Napari plugin to use locan methods in napari

Language: Python - Size: 4.69 MB - Last synced: 24 days ago - Pushed: 6 months ago - Stars: 1 - Forks: 0

EPFL-Center-for-Imaging/napari-z-plotter

Interactively plot the image intensity along the depth axis of a 3D image dataset.

Language: Python - Size: 2.6 MB - Last synced: 26 days ago - Pushed: 5 months ago - Stars: 1 - Forks: 1

EPFL-Center-for-Imaging/napari-remove-objects

A simple tool to remove objects in a Labels layer in Napari by clicking on them.

Language: Python - Size: 474 KB - Last synced: 2 months ago - Pushed: 5 months ago - Stars: 0 - Forks: 0

EPFL-Center-for-Imaging/napari-live-histogram

Display the image histogram in Napari.

Language: Python - Size: 4.37 MB - Last synced: 23 days ago - Pushed: 5 months ago - Stars: 0 - Forks: 0

EPFL-Center-for-Imaging/napari-label-focus

Easily focus the view on selected elements from a Labels layer.

Language: Python - Size: 44.2 MB - Last synced: 23 days ago - Pushed: 5 months ago - Stars: 0 - Forks: 0

EPFL-Center-for-Imaging/napari-woggle-opacity

Dynamically change layer opacity in Napari.

Language: Python - Size: 4.02 MB - Last synced: about 1 month ago - Pushed: 5 months ago - Stars: 0 - Forks: 0

EPFL-Center-for-Imaging/napari-floodfill

Interactive object annotation in Napari using a flood fill tool.

Language: Python - Size: 8.03 MB - Last synced: about 2 months ago - Pushed: 5 months ago - Stars: 0 - Forks: 0

alexisjapas/napari-vesicles-segmentation 📦

A simple plugin to detect vesicles in cells images.

Language: Python - Size: 1.19 MB - Last synced: 17 days ago - Pushed: almost 2 years ago - Stars: 4 - Forks: 0

mpicbg-csbd/napari-kics

A plugin to estimate chromosome sizes from karyotype images.

Language: Python - Size: 8.15 MB - Last synced: about 1 month ago - Pushed: almost 2 years ago - Stars: 4 - Forks: 0

adrtsc/napari-blob-detection

napari plugin for blob detection in images

Language: Python - Size: 222 KB - Last synced: 7 months ago - Pushed: 7 months ago - Stars: 5 - Forks: 4

haesleinhuepf/napari-brightness-contrast

Language: Python - Size: 46.7 MB - Last synced: 4 days ago - Pushed: over 1 year ago - Stars: 11 - Forks: 4

hereariim/napari-pixel-correction

This directory contains the files that make up the napari-pixel-correction module. This module is used to annotate the segmentation masks.

Language: Python - Size: 5.11 MB - Last synced: about 1 month ago - Pushed: 8 months ago - Stars: 2 - Forks: 0

haesleinhuepf/napari-plot-profile

Language: Python - Size: 13.8 MB - Last synced: 19 days ago - Pushed: over 1 year ago - Stars: 17 - Forks: 5

InsightSoftwareConsortium/napari-itk-io

File IO with itk for napari.

Language: Python - Size: 43 KB - Last synced: about 2 months ago - Pushed: about 1 year ago - Stars: 7 - Forks: 2

MBPhys/napari-medical-image-formats

A napari plugin in order to read and write medical image formats such as DICOM, DICOM Series and NIfTI

Language: Python - Size: 21.5 KB - Last synced: 26 days ago - Pushed: over 2 years ago - Stars: 6 - Forks: 0

half-adder/napari-xarray

A plugin to let napari read and write xarray DataArrays

Language: Python - Size: 26.4 KB - Last synced: 10 months ago - Pushed: almost 4 years ago - Stars: 0 - Forks: 0

haesleinhuepf/napari-mahotas-image-processing

Language: Python - Size: 1.25 MB - Last synced: 23 days ago - Pushed: over 2 years ago - Stars: 1 - Forks: 0

hereariim/napari-caphid

Napari-caphid was developed for updating table of quantitative data from images. Napari-caphid was developed by Imhorphen Team ( 🇫🇷 french team of University of Angers and INRAe Angers) for ECLECTIC Team (french team of University of Paris-Saclay and CNRS).

Language: Python - Size: 18.6 KB - Last synced: about 1 month ago - Pushed: 10 months ago - Stars: 0 - Forks: 0

pranjaldhole/napari-labelling-assistant

A lightweight plugin for visualizing labelling statistics.

Language: Python - Size: 52.7 KB - Last synced: 27 days ago - Pushed: almost 2 years ago - Stars: 1 - Forks: 2

BiAPoL/napari-crop

Language: Jupyter Notebook - Size: 34.1 MB - Last synced: 23 days ago - Pushed: 6 months ago - Stars: 7 - Forks: 4

rdemets/napari-yolov5

Language: Python - Size: 94.5 MB - Last synced: 27 days ago - Pushed: over 1 year ago - Stars: 7 - Forks: 1

rezaakb/napari-seedseg

A simple interactive segmentation plugin for napari.

Language: Python - Size: 73.2 KB - Last synced: 2 months ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

sylvainprigent/napari-tracks-reader

napari reader plugin for tracking

Language: Python - Size: 295 KB - Last synced: 27 days ago - Pushed: over 2 years ago - Stars: 7 - Forks: 2

mesoSPIM/mesoSPIM-lazy-loader

Lazy loader napari plugin for mesoSPIM datasets

Language: Python - Size: 1.38 MB - Last synced: 10 months ago - Pushed: about 1 year ago - Stars: 2 - Forks: 0

haesleinhuepf/napari-workflow-optimizer

Optimize image processing workflows in napari

Language: Python - Size: 28 MB - Last synced: about 3 hours ago - Pushed: almost 2 years ago - Stars: 17 - Forks: 2

bhoeckendorf/napari-remote-interaction

Remotely interacts with napari

Language: Python - Size: 29.3 KB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 2 - Forks: 0

MontpellierRessourcesImagerie/napari-J

Connect Napari with FIJI/ImageJ

Language: Python - Size: 127 KB - Last synced: about 1 month ago - Pushed: over 1 year ago - Stars: 3 - Forks: 2

BiAPoL/Quantitative_Bio_Image_Analysis_with_Python_2022

This repository hosts notebooks, information and data for the Quantitative Bio-Image Analysis with Python Course 2022.

Language: Shell - Size: 317 MB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 13 - Forks: 2

napari/napari-io 📦

Napari IO plugin for loading and saving image and object data

Size: 1000 Bytes - Last synced: over 1 year ago - Pushed: over 5 years ago - Stars: 1 - Forks: 1

brainglobe/napari-brainreg 📦

Visualise brainreg registration output

Language: Python - Size: 19.3 MB - Last synced: over 1 year ago - Pushed: over 2 years ago - Stars: 4 - Forks: 0

brainglobe/napari-cellfinder 📦

Language: Python - Size: 8.39 MB - Last synced: over 1 year ago - Pushed: over 2 years ago - Stars: 1 - Forks: 1

haesleinhuepf/napari-webcam 📦

Language: Python - Size: 26.4 KB - Last synced: 23 days ago - Pushed: over 2 years ago - Stars: 1 - Forks: 1

haesleinhuepf/napari-time-slicer

A meta plugin for processing timelapse data timepoint by timepoint in napari

Language: Python - Size: 36.1 MB - Last synced: 22 days ago - Pushed: 7 months ago - Stars: 3 - Forks: 3

ilastik/ilastik-napari

ilastik plugin for napari

Language: Python - Size: 2.58 MB - Last synced: 19 days ago - Pushed: about 2 months ago - Stars: 12 - Forks: 2

bhoeckendorf/napari-monailabel

MONAI Label client plugin for napari

Language: Python - Size: 307 KB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 4 - Forks: 0

haesleinhuepf/napari-curtain

Language: Python - Size: 3.8 MB - Last synced: 23 days ago - Pushed: over 2 years ago - Stars: 4 - Forks: 1

marx-alex/napari-bleach-correct

Napari Photobleach Correction

Language: Python - Size: 3.32 MB - Last synced: 20 days ago - Pushed: over 1 year ago - Stars: 2 - Forks: 0

hanjinliu/napari-text-layer

Text layer for bio-image annotation.

Language: Python - Size: 3.47 MB - Last synced: 14 days ago - Pushed: over 2 years ago - Stars: 6 - Forks: 2

czbiohub/napari-mosquito-bb-annotations

Napari plugin for bounding box annotations

Language: Python - Size: 7.43 MB - Last synced: over 1 year ago - Pushed: about 2 years ago - Stars: 3 - Forks: 0

MBPhys/Partial-Aligner

Partial-Aligner is a napari plugin used for manual registration and histology slide repair

Language: Python - Size: 2.33 MB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 3 - Forks: 0

haesleinhuepf/napari-workflow-inspector

Inspect relationships between napari-plugins in active workflows.

Language: Python - Size: 1020 KB - Last synced: 5 days ago - Pushed: about 2 years ago - Stars: 8 - Forks: 4

jacopoabramo/napari-trait2d

A napari plugin for TRAIT2D, a software for quantitative analysis of single particle diffusion data

Language: Python - Size: 75.2 KB - Last synced: about 1 month ago - Pushed: almost 2 years ago - Stars: 0 - Forks: 0

hanjinliu/napari-multitask

Multitasking on napari

Language: Python - Size: 2.73 MB - Last synced: 8 days ago - Pushed: over 2 years ago - Stars: 2 - Forks: 2

EdgarLefevre/napari-deepmeta

Segment mouse lungs and metastasis on MRI images.

Language: Python - Size: 19.5 MB - Last synced: 8 days ago - Pushed: almost 2 years ago - Stars: 2 - Forks: 2

hiroalchem/napari-labelimg4classification

A simple image-level annotation tool supporting multi-channel images for napari.

Language: Python - Size: 7.75 MB - Last synced: 19 days ago - Pushed: over 2 years ago - Stars: 4 - Forks: 2

haesleinhuepf/napari-pyfast-image-processing

Use pyFAST's CPU/GPU-accelerated image processing from within napari.

Language: Python - Size: 8.79 MB - Last synced: 23 days ago - Pushed: over 2 years ago - Stars: 1 - Forks: 0

InsightSoftwareConsortium/itk-napari-conversion

Convert between itk and napari data structures.

Language: Python - Size: 40 KB - Last synced: about 2 months ago - Pushed: almost 3 years ago - Stars: 3 - Forks: 0

MBPhys/napari-elementary-numpy-operations

A napari plugin covers elementary numpy operations like swap axes, flip, sqeeze an array or rotate an arrays by 90° steps

Language: Python - Size: 7.81 KB - Last synced: 26 days ago - Pushed: over 2 years ago - Stars: 1 - Forks: 1