Alternatives and similar repositories for DeepTree

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

• uhlmanngroup / splinedist
  SplineDist: Automated Cell Segmentation with Spline Curves
  ☆69Updated last year
• lowe-lab-ucl / arboretum
  Track and lineage visualization with btrack and Napari
  ☆45Updated 3 months ago
• mehta-lab / dynamorph
  Learn morphological states of dynamic cells
  ☆12Updated 2 years ago
• BiAPoL / napari-clusters-plotter
  A napari plugin for clustering objects according to their properties.
  ☆88Updated last week
• DanuserLab / u-segment3D
  Generate consensus 3D cells segmentations by combining 2D cell segmentations from any combination of xy, xz, yz views, compatible with ou…
  ☆48Updated 2 weeks ago
• kreshuklab / MorphoFeatures
  MorphoFeatures code and data
  ☆22Updated 2 years ago
• OakesLab / AFT-Alignment_by_Fourier_Transform
  ☆16Updated last year
• Kapoorlabs-CAPED / NapaTrackMater
  Napari Visualization tool for Trackmate > 6.0 XML files for 2/3D + time tracks. Available via pip package napatrackmater.
  ☆18Updated 2 months ago
• neurobiology-ut / PHILOW
  Python-based Human-In-the-LOop Workflow: PHILOW is an interactive deep learning-based platform for 3D datasets
  ☆27Updated 10 months ago
• vanvalenlab / deepcell-label
  Cloud-based data annotation tools for biological images
  ☆83Updated last year
• janelia-cellmap / fibsem-tools
  Tools for handling FIB-SEM data and annotations
  ☆22Updated 8 months ago
• kreshuklab / go-nuclear
  Guides and code for 3D nuclear instance segmentation
  ☆22Updated 3 weeks ago
• fmi-basel / LSTree
  LSTree is a digital organoid and lineage tree extraction workflow for light sheet movies.
  ☆20Updated 2 years ago
• AllenCellModeling / napari-aicsimageio
  Multiple file format reading directly into napari using pure Python
  ☆39Updated 2 months ago
• BiaPyX / BiaPy
  Open source Python library for building bioimage analysis pipelines
  ☆187Updated 2 weeks ago
• deepimagej / python4deepimagej
  ☆14Updated 5 years ago
• trasse / OpSeF-IV
  ☆24Updated 5 years ago
• weigertlab / trackastra
  Transformer-based cell tracking for live-cell microscopy
  ☆119Updated 2 weeks ago
• AllenInstitute / aics-segmentation
  AICS Segmentation (One-Way) Mirror
  ☆45Updated 5 years ago
• constantinpape / elf
  Utils and convenience functions for large-scale bio-image analysis.
  ☆58Updated 2 weeks ago
• AllenCell / aics-ml-segmentation
  ☆32Updated 4 months ago
• Kapoorlabs-CAPED / VollSeg
  Segmentation method able to detect membrane/nuclei-labelled cells with low signal-to-noise ratio and dense packing in 2D and 3D. Availabl…
  ☆34Updated 2 months ago
• HenriquesLab / DL4MicEverywhere
  Bringing the ZeroCostDL4Mic experience running everywhere via easy-to-install docker images
  ☆83Updated last month
• peng-lab / BaSiCPy
  ☆91Updated last month
• stardist / stardist-napari
  StarDist plugin for napari
  ☆38Updated last year
• SchmollerLab / Cell_ACDC
  A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
  ☆189Updated last week
• Sentinal4D / cellshape
  3D shape analysis using deep learning
  ☆28Updated 2 months ago
• haesleinhuepf / BioImageAnalysisNotebooks
  Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more
  ☆151Updated 2 months ago
• AllenCell / aics-segmentation
  Part 1 of Allen Cell and Structure Segmenter: classic image segmentation workflow
  ☆26Updated last year
• stardist / stardist-imagej
  StarDist plugin for ImageJ
  ☆30Updated 3 years ago