Marvin Albert's repositories
elastix_tutorial
Short (itk-)elastix tutorial
fractal-ome-zarr-hcs-stitching
Fractal task(s) for registering and fusing OME-Zarr HCS using multiview-stitcher.
napari-manual-labels-correction
Rebuild labels (e.g. segmentation) after manual correction in napari.
scikit-image
Image Processing SciKit (Toolbox for SciPy)
aicsimageio
Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python
dask-image
Distributed image processing
Geometry3D
Geometry3D: 3D Computational Geometrics Library
gpufuse
python wrapper for Min Guo's CUDA-based dual-view RL fusion
imarispy
Python package for writing 5D numpy arrays to HDF5 files readable by both Imaris and BigDataViewer
Jupyter-Napari-Desktop
Example tutorial for setting up a jupyter desktop remote proxy with napari.
misc_jupyter_notebooks
Contains notebooks for sharing
multiview-stitcher
A toolbox for registering / fusing / stitching multi-view / multi-positioning image datasets in 2-3D.
napari-multiscale-spatial-image
A napari plugin for use with xarray multiscale spatial images.
napari-stitcher
A napari plugin for stitching of large datasets
neubias_academy_biapy
NEUBIAS Academy @Home: Interactive Bioimage Analysis with Python and Jupyter
omnipose
Repository for the Omnipose package and associated scripts for the paper.
open-image-data
A handbook in producing and using open image data and pipelines.
PoL-BioImage-Analysis-TS-GPU-Accelerated-Image-Analysis
PoL Bioimage Analysis Training School: GPU-Accelerated Image Analysis Track
pyclesperanto
GPU-accelerated Image Processing library using OpenCL
PyImageCourse_beginner
Course to learn basics of Python for image processing using Jupyter Notebooks
scipy
Scipy library main repository
spatial-image
A multi-dimensional spatial image data structure for scientific Python.
surface_morphometrics
Morphometrics for Membrane Surfaces Segmented from Cryo-ET or other volumetric imaging.
tifffile
Read and write TIFF files. Forked from https://pypi.org/project/tifffile
vtkplotter
A python class for scientific visualization of 3D objects with VTK
x11vnc-desktop
Docker/Singularity image for Ubuntu with X11 and VNC