Alternatives and similar repositories for LSFM-mouse-brain-atlas:

Users that are interested in LSFM-mouse-brain-atlas are comparing it to the libraries listed below

• NicoKiaru / ABBA-Python
  How to use Aligning Big Brains and Atlases with Python
  ☆15Updated 2 years ago
• bkntr / brainways
  Brainways
  ☆16Updated last week
• brainglobe / brainglobe-registration
  Registration to BrainGlobe atlases in napari using Elastix
  ☆22Updated this week
• BIOP / abba_python
  ABBA, controlled from python
  ☆13Updated last month
• albert597 / TRAILMAP
  ☆45Updated 4 years ago
• ariel-waisman / LabelsToROIs
  A Fiji/ImageJ plugin to generate ROIs from label images, allowing ROI erosion and quantification
  ☆23Updated 3 years ago
• BIOP / ijp-imagetoatlas
  ABBA - Aligning Big Brains and Atlases (2D sections to 3D atlas registration)
  ☆49Updated 2 months ago
• JaneliaSciComp / BigStitcher-Spark
  Running compute-intense parts of BigStitcher distributed
  ☆26Updated 3 weeks ago
• mobie / mobie
  MultiModal Big Image Data Sharing and Exploration
  ☆14Updated 2 years ago
• dterstege / FASTMAP
  ImageJ Plugin for Flexible Atlas Segmentation Tool for Multi-Area Processing
  ☆21Updated 2 years ago
• fmi-basel / LSTree
  LSTree is a digital organoid and lineage tree extraction workflow for light sheet movies.
  ☆18Updated last year
• 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
• stardist / stardist-napari
  StarDist plugin for napari
  ☆38Updated 8 months ago
• JaneliaSciComp / bigstream
  Tools for distributed alignment of massive images
  ☆81Updated 3 weeks ago
• haesleinhuepf / napari-segment-blobs-and-things-with-membranes
  A plugin based on scikit-image for segmenting nuclei and cells based on fluorescent microscopy images with high intensity in nuclei and/o…
  ☆26Updated this week
• brainglobe / brainrender-napari
  A napari plugin to render BrainGlobe atlases and associated data as layers.
  ☆21Updated this week
• ChristophKirst / ClearMap
  ClearMap is a python toolbox for the analysis and registration of volumetric data from cleared tissues.
  ☆53Updated 4 years ago
• BIOP / ijl-utilities-wrappers
  Wrappers for external software calls (Cellpose, Elastix, Ilastix...) and java utilities (object conversions and display)
  ☆37Updated 2 months ago
• QI2lab / OPM
  Archived: control, reconstruction, and analysis code for oblique plane microscopy.
  ☆22Updated last month
• lens-biophotonics / dcimg
  A Python module for accessing Hamamatsu DCIMG files
  ☆14Updated last year
• morphonets / SNT
  The ImageJ framework for quantification of neuronal anatomy
  ☆48Updated this week
• BIOP / ijp-LaRoMe
  some useful function to get Label from ROIs and vice versa , and more!
  ☆12Updated 2 years ago
• saalfeldlab / bigwarp
  A tool for manual pointwise deformable registration using bigdataviewer.
  ☆28Updated last month
• stegmaierj / Cellpose3D
  3D Extension of the Cellpose Algorithm by Stringer et al., 2021.
  ☆35Updated 2 years ago
• haesleinhuepf / devbio-napari
  ☆49Updated this week
• JaneliaSciComp / multifish
  EASI-FISH analysis pipeline for spatial transcriptomics
  ☆34Updated 5 months ago
• guiwitz / naparimovie
  Create movies from series of key-frames in napari.
  ☆38Updated 3 years ago
• cogilab / AMaSiNe
  Implementation of "Precise Mapping of Single Neurons by Calibrated 3D Reconstruction of Brain Slices Reveals Topographic Projection in Mo…
  ☆14Updated 2 years ago
• CellMigrationLab / Fast4DReg
  Fast4DReg is a Fiji script for quick drift correction in time-lapse 3D-stacks. The script can be used to correct drift in all x-, y- and/…
  ☆39Updated 2 weeks ago
• brainglobe / brainglobe-napari-io
  Read and write files from the BrainGlobe neuroanatomy suite
  ☆14Updated this week