gatoniel

napari-3d-ortho-viewer

Napari 3D Ortho Viewer - an ortho viewer for napari for 3D images

merge-stardist-masks

Merge StarDist Masks - additional postprocessing for StarDist

geoopt

Riemannian Adaptive Optimization Methods with pytorch optim

good-enough-project

A good enough project template for writing reproducible code

napari-merge-stardist-masks

Segment non-star-convex objects with StarDist by merging masks.

napari-timeseries-opener-plugin

Simple plugin that opens separate .tif files as a 3-dimensional layer.

napari-validate-random-label-predictions

Validate separate instances of label predictions manually

stardist-stacked-timepoints

Combined StarDist segmentation on time stacks.

cookiecutter-napari-plugin

Cookiecutter for napari plugins

dotfiles

dotfiles

docs

Documentation for napari (other than API docs)

flask

The Python micro framework for building web applications.

gatoniel-utils

Library with utils and helpers for myself.

gatoniel.github.io

jupyterhub

Multi-user server for Jupyter notebooks

mvae

Mixed-curvature Variational Autoencoders (ICLR 2020)

napari

napari: a fast, interactive, multi-dimensional image viewer for python

napari-5d-vibrios-viewer

Open separate tif files in napari as n-d file.

napari-nd2-folder-viewer

Look through separate nd2 files in one viewer.

napari-pointslayer-projection

This napari plugin creates a 2d projection of all your points.

napari-segmentation-investigation

Plugin to investigate the differences between a segmentation and the ground truth.

prospace-pca

A PCA and calculation of means for projective space.

pspca

PCA and calculation of Frechet mean for projective space or sphere.

pvae

code for "Continuous Hierarchical Representations with Poincaré Variational Auto-Encoders".

pytorch-lightning

The lightweight PyTorch wrapper for high-performance AI research. Scale your models, not the boilerplate.

snakemake-slurm-profile

Profile for running snakemake with slurm job submissions

spatial-biofilm-sorting-package

Python package for the spatial-biofilm-sorting project.

stardist-napari

StarDist plugin for napari

stereographic-link-prediction

A VAE on basis of the kappa-stereographic models from geoopt for link prediction and node classification.

transcription-data-analysis

Analysis of transcription data with VAEs and non-euclidean latent spaces.