Alternatives and similar repositories for DeepEM

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

• ilastik / nature_methods_multicut_pipeline
  ☆21Updated 4 years ago
• constantinpape / elf
  Utils and convenience functions for large-scale bio-image analysis.
  ☆58Updated 2 months ago
• funkelab / lsd
  🌈
  ☆66Updated 2 weeks ago
• divelab / deepem3d
  ☆17Updated 7 years ago
• funkey / waterz
  Simple watershed and agglomeration library for affinity graphs.
  ☆25Updated last month
• ClearAnatomics / ClearMap
  ClearMap 2 with WobblyStitcher, TubeMap and CellMap
  ☆128Updated last week
• WenChentao / 3DeeCellTracker
  A python algorithm for tracking cells in 3D time lapse images.
  ☆64Updated last month
• JaneliaSciComp / bigstream
  Tools for distributed alignment of massive images
  ☆87Updated last month
• stegmaierj / Cellpose3D
  3D Extension of the Cellpose Algorithm by Stringer et al., 2021.
  ☆35Updated 3 years ago
• seung-lab / igneous
  Scalable Neuroglancer compatible Downsampling, Meshing, Skeletonizing, Contrast Normalization, Transfers and more.
  ☆55Updated last week
• StructuralNeurobiologyLab / SyConn
  Toolkit for the generation and analysis of volume eletron microscopy based synaptic connectomes of brain tissue.
  ☆42Updated 3 months ago
• lmbneuron / D-LMBmap
  ☆38Updated last year
• yanglf1121 / NuSeT
  NuSeT: A Deep Learning Tool for Reliably Separating and Analyzing Crowded Cells
  ☆20Updated 5 years ago
• nadavyayon / Intensify3D
  Intensify3D is an image normalization tool for large scale fluorescent imaging. It corrects heterogeneities in the signal (defined by the…
  ☆19Updated 4 years ago
• neurobiology-ut / PHILOW
  Python-based Human-In-the-LOop Workflow: PHILOW is an interactive deep learning-based platform for 3D datasets
  ☆27Updated 8 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
• zudi-lin / pytorch_connectomics
  PyTorch Connectomics: segmentation toolbox for EM connectomics
  ☆179Updated this week
• constantinpape / cluster_tools
  Distributed segmentation for bio-image-analysis
  ☆39Updated 5 months ago
• CRBS / cdeep3m
  Please go to https://github.com/CRBS/cdeep3m2 for most recent version
  ☆59Updated 5 years ago
• vessap / vessap
  Experimental code and examples for: Automated analysis of whole brain vasculature using machine learning
  ☆74Updated 4 years ago
• kreshuklab / plant-seg
  A tool for cell instance aware segmentation in densely packed 3D volumetric images
  ☆120Updated this week
• volume-em / cem-dataset
  Utilities for building and using the CEM dataset for unsupervised pre-training and downstream tasks.
  ☆29Updated 2 years ago
• kreshuklab / MorphoFeatures
  MorphoFeatures code and data
  ☆22Updated 2 years ago
• Sentinal4D / cellshape
  3D shape analysis using deep learning
  ☆28Updated 3 weeks ago
• cremi / cremi_python
  Python scripts to read and write the CREMI hdf5 file format.
  ☆39Updated 2 years ago
• funalab / QCANet
  Convolutional Neural Network-Based Instance Segmentation Algorithm to Acquire Quantitative Criteria of Early Mouse Development
  ☆32Updated 2 years ago
• hadim / read-roi
  Read ROI files .zip or .roi generated with ImageJ.
  ☆53Updated 3 years ago
• maweigert / neubias_academy_stardist
  ☆31Updated 4 years ago
• weigertlab / trackastra
  Transformer-based cell tracking for live-cell microscopy
  ☆104Updated 2 weeks ago
• stardist / augmend
  simple package for augmentation of n-dimensional arrays
  ☆33Updated 2 years ago