Alternatives and similar repositories for BiaPy

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

• SchmollerLab / Cell_ACDC
  A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
  ☆186Updated this week
• kreshuklab / plant-seg
  A tool for cell instance aware segmentation in densely packed 3D volumetric images
  ☆123Updated this week
• haesleinhuepf / BioImageAnalysisNotebooks
  Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more
  ☆151Updated last month
• uhlmanngroup / splinedist
  SplineDist: Automated Cell Segmentation with Spline Curves
  ☆69Updated last year
• vanvalenlab / deepcell-label
  Cloud-based data annotation tools for biological images
  ☆82Updated last year
• juglab / EmbedSeg
  Code Implementation for EmbedSeg, an Instance Segmentation Method for Microscopy Images
  ☆122Updated last year
• HenriquesLab / DL4MicEverywhere
  Bringing the ZeroCostDL4Mic experience running everywhere via easy-to-install docker images
  ☆82Updated this week
• kevinjohncutler / omnipose
  Omnipose: a high-precision solution for morphology-independent cell segmentation
  ☆125Updated last week
• AllenCell / aics-ml-segmentation
  ☆32Updated 3 months ago
• MouseLand / cellpose-napari
  napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool
  ☆60Updated last year
• peng-lab / BaSiCPy
  ☆89Updated last week
• deepimagej / deepimagej-plugin
  The ImageJ plugin to run deep-learning models
  ☆98Updated 3 weeks ago
• bioimage-io / archive.bioimage.io
  Website for the BioImage Model zoo -- a model zoo for bioimage analysis.
  ☆60Updated 4 months ago
• labsyspharm / ashlar
  ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration
  ☆155Updated 3 months ago
• WenChentao / 3DeeCellTracker
  A python algorithm for tracking cells in 3D time lapse images.
  ☆65Updated last week
• HenriquesLab / NanoPyx
  Nanoscopy library for Python (NanoPyx, the successor to NanoJ) - focused on light microscopy and super-resolution imaging
  ☆88Updated last week
• CellProfiler / python-bioformats
  Read and write life sciences file formats
  ☆142Updated 5 months ago
• constantinpape / elf
  Utils and convenience functions for large-scale bio-image analysis.
  ☆58Updated 3 months ago
• BiAPoL / napari-clusters-plotter
  A napari plugin for clustering objects according to their properties.
  ☆88Updated last week
• haesleinhuepf / apoc
  Accelerated Pixel and Object Classifiers (APOC)
  ☆58Updated 4 months ago
• aelefebv / nellie
  Nellie: Automated organelle segmentation, tracking, and hierarchical feature extraction in 2D/3D live-cell microscopy
  ☆85Updated 7 months ago
• clEsperanto / pyclesperanto_prototype
  GPU-accelerated bio-image analysis focusing on 3D+t microscopy image data
  ☆232Updated 8 months ago
• haesleinhuepf / stackview
  Interactive image stack viewing in jupyter notebooks based on ipycanvas and ipywidgets
  ☆169Updated 6 months ago
• segment-anything-models-java / SAMJ-IJ
  An ImageJ/Fiji plugin designed to effortlessly integrate Segment-Anything models (SAMs) without code.
  ☆81Updated last week
• AllenCellModeling / aicsimageio
  Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python
  ☆220Updated 10 months ago
• weigertlab / trackastra
  Transformer-based cell tracking for live-cell microscopy
  ☆108Updated last month
• CellProfiler / tutorials
  CellProfiler tutorial pipelines and images
  ☆98Updated 3 weeks ago
• NHPatterson / wsireg
  multimodal whole slide image registration in a graph structure
  ☆95Updated last year
• RMS-DAIM / Python-for-Bioimage-Analysis
  This is the repository for a Python bioimage analysis course which establishes the fundamentals of image analysis in the context of biolo…
  ☆135Updated 5 years ago
• royerlab / ultrack
  Cell tracking and segmentation software
  ☆156Updated this week