VolkerH

Lattice_Lightsheet_Deskew_Deconv

Open-source, GPU accelerated code for deskewing and deconvolving lattice light sheet data

NapariPlayground

my first baby steps with Napari

np_obb

Calculate oriented bounding boxes for label images in python

Tutorial-on-bftools-and-bfconvert

A short tutorial on bfconvert

Ultramicroscope2BigStitcher

Python App to convert files from the LaVision Biotec Ultramicroscope to Big Stitcher Format

awesome-data-labeling

A curated list of awesome data labeling tools

pyDecon

Image deconvolution algorithms in python

ashlar

ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration

BayesianTracker

Bayesian multi-object tracking

cellpose

a generalist algorithm for cellular segmentation

ChrisLUTs

A collection of LUTs for ImageJ/Fiji

container

Options for running ProteoWizard applications via containers (e.g. Docker)

dabl

Data Analysis Baseline Library

dask-examples

Easy-to-run example notebooks for Dask

DJI_Super-Patcher

Liberate DJI drones. Height limit, NFZ limit, enable Galileo Satellites + more

ImarisWriter

jimzMLParser

Java imzML (mass spectrometry imaging) and mzML (mass spectrometry) parser

LabelEditor

macos-virtualbox

Push-button installer of macOS Catalina, Mojave, and High Sierra guests in Virtualbox for Windows, Linux, and macOS

n2v

This is the implementation of Noise2Void training.

n5-utils

simple standalone BigDataViewer for multiple N5 (or HDF5) datasets

pandas-profiling

Create HTML profiling reports from pandas DataFrame objects

projects

Small projects not worthy of dedicated repositories

pyclesperanto_prototype

http://clesperanto.net

pytorch-3dunet

3D U-Net model for volumetric semantic segmentation written in pytorch

ssi-code

Image Deconvolution via Noise-Tolerant Self-Supervised Inversion

tissueRipper

A simple algorithm to create a nice "expanded" visualization of 3D single-cell segmentations of tissues imaged with confocal fluorescence microscopy.

tools

Things we use regularly

TRAILMAP

UniversalRobot-Realtime-Control

A Fork of https://bitbucket.org/RopeRobotics/ur-interface/src. I reduced the code to the absolute minimum needed for executing commands and added an option for real-time Control of a UR Robot.