sebi06

BioFormatsRead

This package can be used to read image data using BioFormats into numpy arrays. It was initially created to read CZI image files, but should work with many more image data files thanks to BioFormats.

napari_zeiss

Use Napari Viewer to display CZI images

czitools

This repository provides a collection of tools to simplify reading CZI (Carl Zeiss Image) pixel and metadata in Python. In addition it also contains other useful utilities to visualize CZI images inside Napari.

i2k_2022_zeiss

This repo contains all the material for the I2K 2022

PSF_XYZ_Bead_Fit

Automatic detection of beads for PSF measurement from Z-Stacks using python-bioformats.

napari-czann-segment

Semantic Segmention and Image2Image using DeepLearning ONNX models packaged as *.czann files.

czi_playground

Small python package to simplify reading CZI Image Metadata (*.czi)

czi_demos

Collection of scripts and notebooks demostrating how to read and process CZI image files. Still in beta phase ...

Microscope_Camera_Compare

Python Tool to compare Camera Specifications

readczi_with_metadata

python_envs

This repository contains a collection of YML and/or requirments file and tricks to create Python Environments

sebi06.github.io

500-AI-Machine-learning-Deep-learning-Computer-vision-NLP-Projects-with-code

500 AI Machine learning Deep learning Computer vision NLP Projects with code

awesome-datascience

:memo: An awesome Data Science repository to learn and apply for real world problems.

create_labels_stardist

script to create labels (for training a deep neural network) based on nucleus segmentation using StarDist (still experimental)

cytodata-hackathon-base

cytodata_2022_workshop

Scripts and tools for the Cytodata 2022 workshop

DaskFusion

Fusing image tiles with dask array's map_blocks

data-science-ipython-notebooks

Data science Python notebooks: Deep learning (TensorFlow, Theano, Caffe, Keras), scikit-learn, Kaggle, big data (Spark, Hadoop MapReduce, HDFS), matplotlib, pandas, NumPy, SciPy, Python essentials, AWS, and various command lines.

homemade-machine-learning

🤖 Python examples of popular machine learning algorithms with interactive Jupyter demos and math being explained

ipy_notebooks

libczi_sebi06

libCZI is an Open Source Cross-Platform C++ library to read and write CZI.

napari-chatgpt-azure

A napari plugin to process and analyse images with chatGPT that works with an Azure endpoint

napari-tiler

Tiling and merging support for napari

napari-zen-connector

OAD_sebi06

Collection of tools and scripts useful to automate microscopy workflows in ZEN Blue using Python and Open Application Development tools and AI tools.

playground_cellpose

Loose collection of scripts using cellpose

python-scripts

A repository of python scripts that come in handy in automating day-to-day tasks

simple-website-github-template

Website URL

tarrow

Time arrow prediction for live-cell microscopy