Artificial intelligence (26)#

AI4Life teams up with Galaxy Training Network (GTN) to enhance training resources#

[‘Caterina Fuster-Barceló’]

Licensed UNKNOWN

Tags: Artificial Intelligence, Workflow Engine, Bio-Image Analysis

Content type: Documentation

https://ai4life.eurobioimaging.eu/ai4life-teams-up-with-galaxy-training-network-gtn-to-enhance-training-resources/

BioEngine#

[‘Jeremy Metz’, ‘Beatriz Serrano-Solano’, ‘Wei Ouyang’]

Licensed UNKNOWN

BioEnging is a cloud infrastructure to run BioImage model zoo based workflows in the cloud.

Tags: Artificial Intelligence, Workflow Engine

Content type: Publication

https://ai4life.eurobioimaging.eu/announcing-bioengine/

Bioimage Model Zoo#

Licensed UNKNOWN

Tags: Bioimage Analysis, Artificial Intelligence

Content type: Collection

https://bioimage.io/

Building a Bioimage Analysis Workflow using Deep Learning#

[‘Estibaliz Gómez-de-Mariscal']

Licensed UNKNOWN

Tags: Artificial Intelligence, Bioimage Analysis

Content type: Slide

esgomezm/NEUBIAS_chapter_DL_2020

CARE/Stardist tutorials for EMBO Practical Course — Computational optical biology 2022#

[‘Martin Weigert’]

Licensed UNKNOWN

Tags: Python, Artificial Intelligence, Bioimage Analysis

Content type: Notebook

maweigert/embo_2022

CSBDeep and StarDist @ I2K 2020#

[‘Martin Weigert’, ‘Uwe Schmidt’]

Licensed UNKNOWN

Tags: Python, Artificial Intelligence, Bioimage Analysis

Content type: Notebook

maweigert/stardist-i2k

Collection of teaching material for deep learning for (biomedical) image analysis#

[‘Constantin Pape’]

Licensed MIT

Tags: Artificial Intelligence, Bioimage Analysis

constantinpape/dl-teaching-resources

Course on Deep Learning for imaging using PyTorch#

[‘Guillaume Witz’]

Licensed UNKNOWN

Tags: Python, Bioimage Analysis, Artificial Intelligence

Content type: Notebook

guiwitz/DLImaging

DEEP NAPARI : Napari as a tool for deep learning project management#

[‘Herearii Metuarea’, ‘David Rousseau’, ‘Pejman Rasti’, ‘Valentin Gilet’]

Licensed UNKNOWN

Tags: Artificial Intelligence, Bioimage Analysis

Content type: Notebook

hereariim/DEEP-NAPARI

DL@MBL 2021 Exercises#

[‘Jan Funke’, ‘Constantin Pape’, ‘Morgan Schwartz’, ‘Xiaoyan’]

Licensed UNKNOWN

Tags: Artificial Intelligence, Bioimage Analysis

Content type: Slide, Notebook

JLrumberger/DL-MBL-2021

Deep Learning Based Segmentation For Biologists#

Licensed AGPL-3.0

Tags: Python, R, Artificial Intelligence

Content type: Notebook

tpecot/DeepLearningBasedSegmentationForBiologists

Deep Learning for image analysis - Exercises#

[‘Martin Weigert’]

Licensed UNKNOWN

Tags: Fiji, Artificial Intelligence, Bioimage Analysis

Content type: Notebook

maweigert/zidas_2020_DL_intro_Part_2

Deep Vision and Graphics#

[‘Victor Yurchenko’, ‘Fedor Ratnikov’, ‘Viktoriia Checkalina’]

Licensed MIT

Tags: Python, Artificial Intelligence

Content type: Notebook

yandexdataschool/deep_vision_and_graphics

DeepProfiler Handbook#

[‘Michael Bornholdt’, ‘Juan Caicedo’, ‘Yu Han’, ‘Nikita Moshkov’, ‘Rebecca Senft’]

Licensed UNKNOWN

Tags: Artificial Intelligence, Bioimage Analysis

Content type: Book

cytomining/DeepProfiler-handbook

https://cytomining.github.io/DeepProfiler-handbook/docs/00-welcome.html

EMBL Deep Learning course 2019 exercises and materials#

[‘Valentyna Zinchenko’, ‘Pejman Rasti’, ‘Martin Weigert’, ‘Szymon Stoma’]

Licensed UNKNOWN

Tags: Python, Artificial Intelligence

Content type: Notebook

kreshuklab/teaching-dl-course-2019

EMBL Deep Learning course 2021/22 exercises and materials#

[‘Martin Weigert’, ‘Constantin Pape’]

Licensed UNKNOWN

Tags: Python, Artificial Intelligence

Content type: Notebook

kreshuklab/teaching-dl-course-2022

EMBL Deep Learning course 2023 exercises and materials#

[‘Martin Weigert’, ‘Uwe Schmidt’, ‘Benjamin Gallusser’, ‘Albert Dominguez Mantes’, ‘Buglakova Alyona’]

Licensed UNKNOWN

Tags: Python, Artificial Intelligence

Content type: Notebook

kreshuklab/teaching-dl-course-2023

Generative artificial intelligence for bio-image analysis#

[‘Robert Haase’]

Licensed CC-BY-4.0

Tags: Python, Bioimage Analysis, Artificial Intelligence

Content type: Slide

https://f1000research.com/slides/12-971

Kreshuk Lab’s EMBL EIPP predoc course teaching material#

[‘Adrian Wolny’, ‘Johannes Hugger’, ‘Qin Yu’, ‘Buglakova Alyona’]

Licensed UNKNOWN

Tags: Artificial Intelligence

Content type: Tutorial

kreshuklab/predoc-course

Machine Learning - Deep Learning. Applications to Bioimage Analysis#

[‘Estibaliz Gómez-de-Mariscal’]

Licensed UNKNOWN

Tags: Artificial Intelligence, Bioimage Analysis

Content type: Slide

https://raw.githubusercontent.com/esgomezm/esgomezm.github.io/master/assets/pdf/SPAOM2018/MachineLearning_SPAOMworkshop_public.pdf

Machine and Deep Learning on the cloud: Segmentation#

[‘Ignacio Arganda-Carreras’]

Licensed UNKNOWN

Tags: Neubias, Artificial Intelligence, Bioimage Analysis

Content type: Slide

https://docs.google.com/presentation/d/1oJoy9gHmUuSmUwCkPs_InJf_WZAzmLlUNvK1FUEB4PA/edit#slide=id.ge3a24e733b_0_54

Neubias Academy 2020: Introduction to Nuclei Segmentation with StarDist#

[‘Martin Weigert’, ‘Olivier Burri’, ‘Siân Culley’, ‘Uwe Schmidt’]

Licensed UNKNOWN

Tags: Python, Neubias, Artificial Intelligence, Bioimage Analysis

Content type: Slide, Notebook

maweigert/neubias_academy_stardist

Running Deep-Learning Scripts in the BiA-PoL Omero Server#

[‘Marcelo Zoccoler’]

Licensed CC-BY-4.0

Tags: Python, Artificial Intelligence, Bioimage Analysis

Content type: Blog

https://biapol.github.io/blog/marcelo_zoccoler/omero_scripts/readme.html

Training Deep Learning Models for Vision - Compact Course#

[‘Constantin Pape’, ‘Adrian Wolny’]

Licensed UNKNOWN

Tags: Artificial Intelligence, Bioimage Analysis

constantinpape/training-deep-learning-models-for-vison

ZIDAS 2020 Introduction to Deep Learning#

[‘Estibaliz Gómez-de-Mariscal’]

Licensed UNKNOWN

Tags: Artificial Intelligence, Bioimage Analysis

Content type: Slide

esgomezm/zidas2020_intro_DL

ilastik: interactive machine learning for (bio)image analysis#

[‘Anna Kreshuk’, ‘Dominik Kutra’]

Licensed CC-BY-4.0

Tags: Artificial Intelligence, Bioimage Analysis

Content type: Slide

https://zenodo.org/doi/10.5281/zenodo.4330625