Alternatives and similar repositories for SME

Users that are interested in SME are comparing it to the libraries listed below

• DanuserLab / u-shape3D
  Detect morphological motifs, such as blebs, filopodia, and lamellipodia, from 3D images of surfaces, particularly images of cell surfaces…
  ☆29Updated 7 months ago
• smithk / cidre
  A general illumination correction method for optical microscopy.
  ☆42Updated 4 years ago
• AllenInstitute / aics-segmentation
  AICS Segmentation (One-Way) Mirror
  ☆45Updated 4 years ago
• cmongis / psfj
  PSFj - Know your microscope fluorescence
  ☆22Updated 5 years ago
• hammerlab / flowdec
  TensorFlow Deconvolution for Microscopy Data
  ☆91Updated 3 years ago
• funkelab / linajea
  ☆18Updated 2 years ago
• sofroniewn / napari-training-course
  Lectures for a napari training course
  ☆51Updated 2 years ago
• lowe-lab-ucl / arboretum
  Track and lineage visualization with btrack and Napari
  ☆45Updated last month
• sverger / SurfCut
  Fiji macro for cutting confocal stacks at various depths relative to surface signal
  ☆10Updated 5 years ago
• UU-cellbiology / ComDet
  ImageJ plugin detecting and colocalizing particles of given size (vesicles, dots, etc on biological microscopy images)
  ☆19Updated 5 months ago
• clij / clij-docs
  Online documentation and reference for CLIJ
  ☆28Updated 4 years ago
• bene51 / 3Dscript
  Create 3D/4D animations using a natural language-based syntax
  ☆61Updated 5 months ago
• UU-cellbiology / ZstackDepthColorCode
  Z-stack Depth Colorcode ImageJ FIJI plugin
  ☆25Updated 2 weeks ago
• bigdataviewer / bigdataviewer-playground
  ☆20Updated 3 weeks ago
• Kapoorlabs-CAPED / NapaTrackMater
  Napari Visualization tool for Trackmate > 6.0 XML files for 2/3D + time tracks. Available via pip package napatrackmater.
  ☆18Updated last month
• BIOP / ijp-LaRoMe
  some useful function to get Label from ROIs and vice versa , and more!
  ☆11Updated 2 years ago
• haesleinhuepf / apoc
  Accelerated Pixel and Object Classifiers (APOC)
  ☆58Updated 4 months ago
• AllenInstitute / aics-ml-segmentation
  AICS ML Segmentation (One-Way) Mirror
  ☆27Updated 4 years ago
• piximi / piximi_old
  a free, open-source web app for annotating, training, and evaluating image understanding algorithms
  ☆25Updated 3 years ago
• funkelab / daisy
  Block-wise task scheduling for large nD volumes.
  ☆32Updated 7 months ago
• clEsperanto / i2k2020_tutorial_clij_clesperanto
  ☆12Updated 4 years ago
• nvladimus / npy2bdv
  Fast writing of numpy 3d-arrays into HDF5 Fiji/BigDataViewer files.
  ☆34Updated last year
• MouseLand / cellpose-napari
  napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool
  ☆60Updated last year
• jvzonlab / OrganoidTracker
  Cell tracker designed for tracking intestinal organoids
  ☆30Updated last week
• HenriquesLab / NanoJ-Core
  Core functionality of NanoJ
  ☆17Updated last year
• spreka / biomagdsb
  This repository contains the codes to run the nuclei segmentation pipeline of the BIOMAG group inspired by Kaggle's Data Science Bowl 201…
  ☆55Updated 5 years ago
• uhlmanngroup / splinedist
  SplineDist: Automated Cell Segmentation with Spline Curves
  ☆69Updated last year
• pylattice / pyLattice
  A python library for advanced lattice light-sheet image analysis
  ☆21Updated 5 years ago
• ariel-waisman / LabelsToROIs
  A Fiji/ImageJ plugin to generate ROIs from label images, allowing ROI erosion and quantification
  ☆23Updated 4 years ago
• NEUBIAS / neubias-springer-book-2021
  The repository of NEUBIAS textbook 2021
  ☆11Updated 3 years ago