Alternatives and similar repositories for DeepEM

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

• constantinpape / elf
  Utils and convenience functions for large-scale bio-image analysis.
  ☆60Updated last month
• ilastik / nature_methods_multicut_pipeline
  ☆22Updated last month
• funkelab / lsd
  🌈
  ☆67Updated 3 months ago
• ClearAnatomics / ClearMap
  ClearMap 2 with WobblyStitcher, TubeMap and CellMap
  ☆138Updated last month
• stegmaierj / Cellpose3D
  3D Extension of the Cellpose Algorithm by Stringer et al., 2021.
  ☆35Updated 3 years ago
• nadavyayon / Intensify3D
  Intensify3D is an image normalization tool for large scale fluorescent imaging. It corrects heterogeneities in the signal (defined by the…
  ☆20Updated 4 years ago
• JaneliaSciComp / bigstream
  Tools for distributed alignment of massive images
  ☆92Updated last week
• funkey / waterz
  Simple watershed and agglomeration library for affinity graphs.
  ☆27Updated 4 months ago
• constantinpape / cluster_tools
  Distributed segmentation for bio-image-analysis
  ☆41Updated 3 weeks ago
• divelab / deepem3d
  ☆17Updated 8 years ago
• WenChentao / 3DeeCellTracker
  A python algorithm for tracking cells in 3D deforming organs
  ☆67Updated 2 months ago
• Sentinal4D / cellshape
  3D shape analysis using deep learning
  ☆29Updated 4 months ago
• soltanianzadeh / STNeuroNet
  Software for the paper "Fast and robust active neuron segmentation in two-photon calcium imaging using spatio-temporal deep learning," Pr…
  ☆67Updated 6 years ago
• funalab / QCANet
  Convolutional Neural Network-Based Instance Segmentation Algorithm to Acquire Quantitative Criteria of Early Mouse Development
  ☆32Updated 2 years ago
• seung-lab / igneous
  Scalable Neuroglancer compatible Downsampling, Meshing, Skeletonizing, Contrast Normalization, Transfers and more.
  ☆65Updated 3 weeks ago
• cremi / cremi_python
  Python scripts to read and write the CREMI hdf5 file format.
  ☆39Updated 2 years ago
• PytorchConnectomics / pytorch_connectomics
  PyTorch Connectomics: segmentation toolbox for EM connectomics
  ☆188Updated this week
• StructuralNeurobiologyLab / SyConn
  Toolkit for the generation and analysis of volume eletron microscopy based synaptic connectomes of brain tissue.
  ☆43Updated 6 months ago
• DanuserLab / u-segment3D
  Generate consensus 3D cells segmentations by combining 2D cell segmentations from any combination of xy, xz, yz views, compatible with ou…
  ☆55Updated 2 months ago
• weigertlab / trackastra
  Transformer-based cell tracking for live-cell microscopy
  ☆123Updated last week
• GuillaumeMougeot / biom3d
  Easy Volumetric Segmentation with Deep Learning
  ☆28Updated 2 weeks ago
• maweigert / neubias_academy_stardist
  ☆31Updated 4 years ago
• CRBS / cdeep3m
  Please go to https://github.com/CRBS/cdeep3m2 for most recent version
  ☆59Updated 6 years ago
• juglab / DenoiSeg
  Joint training of denoising and segmentation.
  ☆76Updated 2 years ago
• stardist / augmend
  simple package for augmentation of n-dimensional arrays
  ☆34Updated 2 years ago
• neurobiology-ut / PHILOW
  Python-based Human-In-the-LOop Workflow: PHILOW is an interactive deep learning-based platform for 3D datasets
  ☆27Updated 11 months ago
• peng-lab / leonardo_toolset
  ☆16Updated this week
• vessap / vessap
  Experimental code and examples for: Automated analysis of whole brain vasculature using machine learning
  ☆76Updated 4 years ago
• BiaPyX / BiaPy
  Open source Python library for building bioimage analysis pipelines
  ☆188Updated this week
• abcucberkeley / PetaKit5D
  ☆49Updated 2 months ago