This is a curated list of napari plugins, that are open-source but not on the napari-hub just (yet). The intention of this list is to guide developers and users who want to find out if certain plugins exist already and/or are under development. Many of these plugins are under active development and thus, not available via pypi and the napari-hub yet. Some other plugins were decommissioned and are no longer developed. This list provides links to these valuable resources so that others can learn from the code, resurrect useful functionality and don't have to start from scratch. Another intention is to motivate developers to work together on plugins and contribute to active projects, instead of developing similar plugins in parallel.

Contributions to the list are very welcome. If you want to add an entry to this list or modify a description or link for example, please modify the list.csv file in a fork of this repository and send a pull-request. If you are new to pull-requests, you may be interested in this blog post.

The list is sorted alphabetically.

Create projects in napari to annotate series of images and export annotations

napari plugin for blob detection in images

Napari plugin for btrack

This plugin interfaces with CaImAn CNMF using QProcess and displays the spatial components using napari.layers.shapes.

A napari plugin to inspect data within a cisTEM project

Segment images by pixel classification based on pre-trained convolutional layer feature extraction

napari plugin for detectron2

A ptable plotting library

Visualizing feature measurements on label images in napari

meshes between neighbors

A plugin for the guanine crystal segmentation classification and characterization in the zebrafish eye

simple napari plugin to view multi-well images in HDF5 format

a napari plugin for viewing high-speed AFM movies

Napari plugin for opening images from idr.openmicroscopy.org

Reader for ImageJ ROI files

ilastik plugin for napari

napari plugin for iteratively improving 3D instance segmentation of cells (u-net x watershed)

handling overlapping labels

A plugin for doing manual instance segmentation.

Napari plugin for creating labels using floodfill.

A temporary plugin with npe2 to use with napari in the process of developing a light field imaging plugin

Process images using mahotas from within napari (experimental just playing plugin)

Control napari with a USB MIDI controller

minimal example plugin (training material)

Napari plugin to load and visualize 3D image time series saved by Map Manager

A napari plugin to use as interface for the morphodynamics package

Napari plugin for bounding box annotations

A self-supervised denoising algorithm now usable by all in napari

Widget to add an additional viewport to visualize on a specific shape

Provides segmentation with a CZANN containing an ONNX model for sematic segmentation.

A napari plugin for self-supervised denoising and segmentation of microscopy images using the DenoiSeg method

napari interface for the Caltech electron tomography database

Widget for multi-scale/multi-dimensional hdf5 files

Napari plugins for reading and writing ImageJ roi files and creating image profiles.

Reader for multi-scale (pyramidal) TIFF files

Widget to stream images from a TissueMAPS server

Reader for a series of images enlisted within an XML files

Prototype implementation of napari-integrated CNN training viewer

Napari plugin that provide better save/load for all opened layers

A napari plugin that uses nibabel to display medical images (NIFTI1 NIFTI2 ANALYZE Philips PAR/REC MINC1 MINC2 AFNI BRIK/HEAD and MGH/MGZ.)

A napari plugin to read NMR spectra

particle image velocimetry

particle image velocimetry

WIP: A napari plugin to view attention-based heatmaps for whole slide images

Development of PICASSO plugin for napari

Process images using pillow from within napari (experimental just playing plugin)

Example adaptor between skimage magicgui and napari WORK IN PROGRESS

A plugin for training and applying pssr

Process images using pyfast from within napari (experimental just playing plugin)

napari plugin for data management with sciXtracer library

napari segmentation plugin

Writer plugin for napari to allow saving Sentinel tiffs out to ome-zarr

Plugin to allow loading of SENTINEL zips into napari directly

batch processing for cellpose

skeleton analysis

skeleton curation plugin for napari

Autogenerated napari widgets for scikit-image functions.

matrix decomposition algorithms from sklearn.decomposition within napari.

Load slidebook .sldy files into napari

Analyze architecture of spatially distributed objects.

An adaptive 3D brush for segmentation based on local region growing

spot detection

A simple napari plugin for spot detection

A demo of stable diffusion in napari

STORM plugin

A suite of 3D interactivity tools for napari

Simple plugin that opens separate .tif files as a 3-dimensional layer.

View images from your webcam in napari (decommissioned plugin/ archived)

napari plugin providing interface to xarray-spatial functions

A napari plugin for reading data from yt

experimental plugin for use with the yt schema

Napari plugin to write zarr files