Alternatives and similar repositories for SeBRe

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

• 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
• brainglobe / brainreg
  Automated 3D brain registration with support for multiple species and atlases.
  ☆138Updated 3 weeks ago
• ActiveBrainAtlas / MouseBrainAtlas
  A system for building mouse brain atlas from histology series
  ☆11Updated 5 years ago
• ClearAnatomics / ClearMap
  ClearMap 2 with WobblyStitcher, TubeMap and CellMap
  ☆128Updated last week
• ChristophKirst / ClearMap
  ClearMap is a python toolbox for the analysis and registration of volumetric data from cleared tissues.
  ☆53Updated 5 years ago
• pmajka / poSSum
  ☆13Updated 6 years ago
• albert597 / TRAILMAP
  ☆45Updated 5 years ago
• StructuralNeurobiologyLab / SyConn
  Toolkit for the generation and analysis of volume eletron microscopy based synaptic connectomes of brain tissue.
  ☆42Updated 3 months ago
• brainglobe / slicereg
  A 2D-3D histological brain slice registration application for mouse, rat, zebrafish brains.
  ☆36Updated last year
• maweigert / neubias_academy_stardist
  ☆31Updated 4 years ago
• PolarBean / DeepSlice
  A python package which aligns histology to the Allen Brain Atlas and Waxholm rat atlas using deep learning.
  ☆106Updated 2 months ago
• bf777 / MesoNet
  A python toolbox for locating and exporting brain regions from mouse brain images.
  ☆12Updated last year
• neuronets / nobrainer
  A framework for developing neural network models for 3D image processing.
  ☆167Updated 2 weeks ago
• Conxz / multiBrain
  A list of brain imaging datasets with multiple scans per subject. Feel free to update the list via 'pull requests'!
  ☆99Updated 7 months ago
• AICONSlab / MIRACL
  Multi-modal Image Registration And Connectivity anaLysis
  ☆45Updated this week
• Entodi / MeshNet
  Code and model of article "End-to-end learning of brain tissue segmentation from imperfect labeling" https://arxiv.org/abs/1612.00940
  ☆16Updated 7 years ago
• nickdelgrosso / ABBA-QuPath-RegistrationAnalysis
  A visualization app for 3D-registered data processed in ABBA and QuPath
  ☆20Updated 3 years ago
• ucl-pond / pySuStaIn
  Subtype and Stage Inference (SuStaIn) algorithm with an example using simulated data.
  ☆179Updated 2 weeks ago
• vessap / vessap
  Experimental code and examples for: Automated analysis of whole brain vasculature using machine learning
  ☆74Updated 4 years ago
• AllenInstitute / open_dataset_tools
  Tools for accessing open data sets published by the Allen Institute for Brain Sciences
  ☆14Updated 4 years ago
• CoBrALab / optimized_antsMultivariateTemplateConstruction
  A re-implementation of antsMultivariateTemplateConstruction2.sh using optimized image pyramid scale-space and qbatch support
  ☆32Updated last week
• alexklibisz / deep-calcium
  Fast, Simple Calcium Imaging Segmentation with Fully Convolutional Networks (https://arxiv.org/abs/1707.06314)
  ☆29Updated 2 years ago
• lmbneuron / D-LMBmap
  ☆38Updated last year
• JaneliaSciComp / bigstream
  Tools for distributed alignment of massive images
  ☆87Updated last month
• Vaa3D / vaa3d_tools
  www.vaa3d.org
  ☆113Updated last year
• AllenInstitute / cocoframer
  COmmon COordinate FRAMEwork in R
  ☆36Updated 5 years ago
• nipreps / niworkflows
  Common workflows for MRI (anatomical, functional, diffusion, etc)
  ☆105Updated this week
• neurodesk / neurodesktop
  The plug-and-play, browser-accessible, containerised data analysis environment.
  ☆52Updated this week
• janelia-flyem / NeuTu
  Software package for neuron reconstruction and visualization
  ☆39Updated 5 months ago
• ncullen93 / neuroCombat
  Harmonizing neuroimaging data across scanners and sites
  ☆35Updated 5 years ago