Tatiana Woller's repositories
BatchConvert
A command-line tool to convert image data into standardised formats OME-TIFF and OME-Zarr
bia-agent
BioImage Archive local submission assistant
cbias-napari
Introduction to Napari training course
courses
This repository is a curated collection of links to various courses and resources about Artificial Intelligence (AI)
Data-Science-For-Beginners
10 Weeks, 20 Lessons, Data Science for All!
DL4MicEverywhere
Bringing the ZeroCostDL4Mic experience running everywhere via easy-to-install docker images
doubleml-for-py
DoubleML - Double Machine Learning in Python
empiar-depositor
Python package for depositing into EMPIAR
hpc-container-wrapper
Tool to wrap installations into a container designed for use on HPC systems
imcyto
Image Mass Cytometry analysis pipeline
jupyter-ai
A generative AI extension for JupyterLab
Linux-for-HPC
Slides, exercises and extra files for the Linux for HPC course at KU Leuven
NanoPyx
Nanoscopy library for Python (NanoPyx, the successor to NanoJ) - focused on light microscopy and super-resolution imaging
napari-clemreg
An automated point-set based registration algorithm for correlative light and electron microscopy (CLEM)
ome-zarr-image-analysis-nextflow
Basic example of using OME-Zarr in a Nextflow pipeline
ProteomicsML
Community-curated tutorials and datasets for ML in proteomics
python-mastery
Advanced Python Mastery (course by @dabeaz)
python_envs
This repository contains a collection of YML and/or requirments file and tricks to create Python Environments
python_for_microscopists
https://www.youtube.com/channel/UC34rW-HtPJulxr5wp2Xa04w?sub_confirmation=1
rl-baselines3-zoo
A training framework for Stable Baselines3 reinforcement learning agents, with hyperparameter optimization and pre-trained agents included.
Segment-Flow
Nextflow pipeline for deep learning segmentation models
SimpleITK-Notebooks
Jupyter notebooks for learning how to use SimpleITK
VscDocumentation
VSC (Vlaams Supercomputing Center) user documentation.
webknossos-libs
Python API and CLI tools for working with WEBKNOSSOS datasets, annotations and server interactions. Includes converter to OME-Zarr.