Unknown (89)

Contents

Unknown (89)#

2022 MIC Workshop on Bioimage processing with Python#

Guillaume Witz

Licensed UNKNOWN

Tags: Python, Bioimage Analysis

Content type: Notebook

guiwitz/MICPy_Workshop_2022

AI ML DL in Bioimage Analysis - Webinar#

Yannick KREMPP

Published 2024-11-14

Licensed UNKNOWN

A review of the tools, methods and concepts useful for biologists and life scientists as well as bioimage analysts.

Tags: Deep Learning, Machine Learning, Artificial Intelligence, Bioimage Analysis, Large Language Models

Content type: Youtube Video, Slides, Webinar

https://www.youtube.com/watch?v=TJXNMIWtdac

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

Caterina Fuster-Barceló

Licensed UNKNOWN

Tags: Artificial Intelligence, Workflow Engine, Bioimage Analysis

Content type: Documentation

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

Analysis of High-Throughput Microscopy Image Data#

Kota Miura, Christoph Schiklenk, Clemens Lakner, Christian Tischer, Aliaksandr Halavatyi

Published 2014

Licensed UNKNOWN

miura/HTManalysisCourse

Artificial Intelligence for Digital Pathology#

Jakob Nikolas Kather, Faisal Mahmood, Florian Jug

Published 2024-11-08

Licensed UNKNOWN

How can artificial intelligence be used for digital pathology?

Tags: Artificial Intelligence

Content type: Youtube Video

https://www.youtube.com/watch?v=Om9tl4Dh2yw

Best practice data life cycle approaches for the life sciences#

Philippa C. Griffin, Jyoti Khadake, Kate S. LeMay, Suzanna E. Lewis, Sandra Orchard, et al.

Published 2018-06-04

Licensed UNKNOWN

The authors provide an overview of best practice data life cycle approaches for researchers in the life sciences/bioinformatics space with a particular focus on ‘omics’ datasets and computer-based data processing and analysis.

Tags: Bioinformatics, Reproducibility, Research Data Management, Sharing, Open Science

Content type: Publication

https://doi.org/10.12688/f1000research.12344.2

Bio Image Analysis#

Christian Tischer

Licensed UNKNOWN

Tags: Bioimage Analysis

Content type: Slide

tischi/presentation-image-analysis

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/

Biologists, stop putting UMAP plots in your papers#

Rafael Irizarry

Published 2024-12-23

Licensed UNKNOWN

UMAP is a powerful tool for exploratory data analysis, but without a clear understanding of how it works, it can easily lead to confusion and misinterpretation.

Tags: Biology, Data Analysis, Umap

Content type: Blog Post

https://simplystatistics.org/posts/2024-12-23-biologists-stop-including-umap-plots-in-your-papers/

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

Cell Tracking Challenge - 2D Datasets#

Licensed UNKNOWN

Tags: Bioimage Analysis

Content type: Collection, Data

http://celltrackingchallenge.net/2d-datasets/

Cell Tracking Challenge - 3D Datasets#

Licensed UNKNOWN

Tags: Bioimage Analysis

Content type: Collection, Data

http://celltrackingchallenge.net/3d-datasets/

CellProfiler Introduction#

Anna Klemm

Licensed UNKNOWN

Tags: Neubias, Cellprofiler, Bioimage Analysis

Content type: Slide

ahklemm/CellProfiler_Introduction

CellProfiler Practical NeuBIAS Lisbon 2017#

Carolina Wählby, Maxime Bombrun, Christian Tischer

Licensed UNKNOWN

Tags: Neubias, Cellprofiler, Bioimage Analysis

Content type: Tutorial

tischi/cellprofiler-practical-NeuBIAS-Lisbon-2017

Chris Halvin YouTube channel#

Licensed UNKNOWN

Tags: Napari, Python, Bioimage Analysis

Content type: Collection, Video

https://www.youtube.com/@chrishavlin

https://www.youtube.com/playlist?list=PLqbhAmYZU5KxuAcnNBIxyBkivUEiKswq1

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

DL4MicEverywhere – Overcoming reproducibility challenges in deep learning microscopy imaging#

Iván Hidalgo-Cenalmor

Published 2024-07-29

Licensed UNKNOWN

Tags: Deep Learning, Microscopy, Microsycopy Image Analysis, Bio Image Analysis, Artifical Intelligence

Content type: Blog Post

https://focalplane.biologists.com/2024/07/29/dl4miceverywhere-overcoming-reproducibility-challenges-in-deep-learning-microscopy-imaging/

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

Dask Course#

Guillaume Witz

Licensed UNKNOWN

Tags: Python, Bioimage Analysis, Big Data

Content type: Notebook

guiwitz/DaskCourse

Data Visualization with Flying Colors#

Joachim Goedhart

Published 2019-08-29

Licensed UNKNOWN

The author discusses a number of color palettes that are suitable for coloring graphical elements in plots.

Tags: Data Visualization

Content type: Blog Post

https://thenode.biologists.com/data-visualization-with-flying-colors/research/

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

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

Diffusion Models for Image Restoration - An Introduction#

Anirban Ray

Licensed UNKNOWN

Presentation given at the EMBO-DL4MIA 2024, Advanced Topic Seminar, May-11-2024

Tags: Bioimage Analysis, Diffusion Models, Tu Dresden

Content type: Presentation

https://drive.google.com/file/d/1pPVUUMi5w2Ojw_SaBzSQVaXUuIKtQ7Ma/view

Docker Mastery - with Kubernetes + Swarm from a Docker Captain#

Bret Fisher

Licensed UNKNOWN

In this course you will learn how to use Docker, Compose and Kubernetes on your machine for better software building and testing.

Tags: Docker, Training

Content type: Videos, Tutorial, Online Course

https://www.udemy.com/course/docker-mastery/?srsltid=AfmBOornR5gRqOg-4v8Nsap1z24CaPPUPxg8JzyqEGZ6MvW_dh-sf4Af&couponCode=ST2MT110724BNEW

Dr Guillaume Jacquemet on studying cancer cell metastasis in the era of deep learning for microscopy#

Guillaume Jacquemet

Published 2024-10-24

Licensed UNKNOWN

Leukocyte extravasation is a critical component of the innate immune response, while circulating tumour cell extravasation is a crucial step in metastasis formation. Despite their importance, these extravasation mechanisms remain incompletely understood. In this talk, Guillaume Jacquemet presents a novel imaging framework that integrates microfluidics with high-speed, label-free imaging to study the arrest of pancreatic cancer cells (PDAC) on human endothelial layers under physiological flow conditions.

Tags: Deep Learning, Microscopy Image Analysis

Content type: Youtube Video, Slides

https://www.youtube.com/watch?v=KTdZBgSCYJQ

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

EuBIAS course 2013: Intensity Dynamics at the Periphery of Nucleus#

Kota Miura

Published 2013

Licensed UNKNOWN

Tags: Neubias, Bioimage Analysis

Content type: Tutorial, Book

miura/BIAS_Nucleus_Segmentation

Finding and Choosing a Data Repository#

Christian Schmidt

Published 2023-07-01

Licensed UNKNOWN

Funding agencies may demand that original source data of a publication be published, too. So the question is - where should one publish the data? And how does it get there?

Tags: I3Dbio, Research Data Management

Content type: Tutorial

https://gerbi-gmb.de/2023/06/01/finding-and-choosing-a-repository/

Five great reasons to share your research data#

Published 2022-03-18

Licensed UNKNOWN

Sharing your data can benefit your career in some interesting ways. In this post, read why you should be making more of your research data openly available.

Tags: Research Data Management, Sharing

Content type: Blog

https://web.library.uq.edu.au/blog/2022/03/five-great-reasons-share-your-research-data

Fundamentals in digital image processing#

Guillaume Witz

Licensed UNKNOWN

Tags: Bioimage Analysis

Content type: Notebook

guiwitz/Fundamentals_image_processing

Ghent University Research Data Management (RDM) - policy and support#

University of Ghent

Licensed UNKNOWN

The website provides resources and guidelines for managing research data efficiently and responsibly. Its focus is to ensure that data are properly organized, stored, documented, and shared throughout a research project, and even beyond, in a way that aligns with Open Science principles.

Tags: Research Data Management

Content type: Website

https://www.ugent.be/en/research/openscience/datamanagement

Glencoe Software Webinars#

Chris Allan, Emil Rozbicki

Licensed UNKNOWN

Example Workflows / usage of the Glencoe Software.

Tags: OMERO, Training

Content type: Videos, Tutorial, Collection

https://www.glencoesoftware.com/media/webinars/

I3D bio – Information Infrastructure for BioImage Data - Bioimage Metadata#

Christian Schmidt

Licensed UNKNOWN

A Microscopy Research Data Management Resource.

Tags: Metadata, I3Dbio, Research Data Management, Bioimage Data

Content type: Collection

https://gerbi-gmb.de/i3dbio/i3dbio-rdm/i3dbio-bioimage-metadata/

I3D:bio list of online training material#

Licensed UNKNOWN

List of links to training materials by the I3D:bio community.

Tags: Research Data Management

Content type: Collection

https://gerbi-gmb.de/i3dbio/i3dbio-teaching/train-mat/bioimagelist/

Image Data Services at Euro-BioImaging: Community efforts towards FAIR Image Data and Analysis Services#

Aastha Mathur

Licensed UNKNOWN

Content type: Slide

https://docs.google.com/presentation/d/1henPIDTpHT3bc1Y26AltItAHJ2C5xCOl/edit#slide=id.p1

Image analysis in Galaxy#

Beatriz Serrano-Solano, Björn Grüning

Licensed UNKNOWN

Tags: Bioimage Analysis

Content type: Slide

https://docs.google.com/presentation/d/1WG_4307XmKsGfWT3taxMvX2rZiG1k0SM1E7SAENJQkI/edit#slide=id.p

ImageJ Macro Introduction#

Anna Klemm

Licensed UNKNOWN

Tags: Neubias, Imagej Macro, Bioimage Analysis

Content type: Slide, Code

ahklemm/ImageJMacro_Introduction

Introduction to ImageJ macro programming, Scientific Computing Facility, MPI CBG Dresden#

Robert Haase, Benoit Lombardot

Licensed UNKNOWN

Tags: Imagej, Bioimage Analysis

Content type: Slide

https://git.mpi-cbg.de/scicomp/bioimage_team/coursematerialimageanalysis/tree/master/ImageJMacro_24h_2017-01

Jupyter for interactive cloud computing#

Guillaume Witz

Licensed UNKNOWN

Tags: Neubias, Bioimage Analysis

Content type: Slide

https://docs.google.com/presentation/d/1q8q1xE-c35tvCsRXZay98s2UYWwXpp0cfCljBmMFpco/edit#slide=id.ga456d5535c_2_53

Key-Value pairs scripts#

Licensed UNKNOWN

The key-value pairs are annotations in OMERO useful to describe thoroughly the data and can be added & edited via the OMERO.web interface.

Tags: OMERO

Content type: Documentation, Collection

https://guide-kvpairs-scripts.readthedocs.io/en/latest/

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

Lecture-materials of the DeepLife course#

Carl Herrmann, annavonbachmann, David Hoksza, Martin Schätz, Dario Malchiodi, jnguyenvan, Britta Velten, Elodie Laine, JanaBraunger, barwil

Published 2023-12-06

Licensed UNKNOWN

Tags: Bioinformatics

Content type: Github Repository, Slides, Notebook

deeplife4eu/Lecture-materials

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 Learning Workflow for Imaging Flow Cytometry (IFC)#

Licensed UNKNOWN

Tags: Cellprofiler, Bioimage Analysis

Content type: Tutorial

holgerhennig/machine-learning-IFC

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

Materials for EMBL Coding Club Mini-Tutorials#

Jonas Hartmann, et al.

Licensed UNKNOWN

Tags: Python

Content type: Code, Notebook

WhoIsJack/EMBL-CodingClub

https://bio-it.embl.de/Coding%20Club/Curated%20Tutorials/

Metabolic networks modelling with COBRApy#

Karin Sasaki, Aleksej Zelezniak

Licensed UNKNOWN

Tags: Python

Content type: Notebook

karinsasaki/metabolic-networks-modelling

Metrics Reloaded - A framework for trustworthy image analysis validation#

Licensed UNKNOWN

The mission of Metrics Reloaded is to guide researchers in the selection of appropriate performance metrics for biomedical image analysis problems, as well as provide a comprehensive online resource for metric-related information and pitfalls

Tags: Bioimage Analysis, Image Segmentation, Machine Learning

Content type: Website, Collection

https://metrics-reloaded.dkfz.de/

Models and Applications for BioImage.IO#

Wei Ouyang, et al.

Licensed UNKNOWN

imjoy-team/bioimage-io-resources

NEUBIAS Analyst School 2018#

Assaf Zaritsky, Csaba Molnar, Vasja Urbancic, Richard Butler, Anna Kreshuk, Vannary Meas-Yedid

Licensed UNKNOWN

Tags: Neubias, Bioimage Analysis

Content type: Slide, Code, Notebook

miura/NEUBIAS_AnalystSchool2018

NEUBIAS Bioimage Analyst Course 2017#

Curtis Rueden, Florian Levet, J.B. Sibarta, Alexandre Dafour, Daniel Sage, Sebastien Tosi, Michal Kozubek, Jean-Yves Tinevez, Kota Miura, et al.

Licensed UNKNOWN

Tags: Neubias, Bioimage Analysis

Content type: Slide, Tutorial

miura/NEUBIAS_Bioimage_Analyst_Course2017

NEUBIAS Bioimage Analyst School 2019#

Kota Miura, Chong Zhang, Jean-Yves Tinevez, Robert Haase, Julius Hossein, Pejamn Rasti, David Rousseau, Ignacio Arganda-Carreras, Siân Culley, et al.

Licensed UNKNOWN

Tags: Neubias, Bioimage Analysis

Content type: Slide, Code, Notebook

miura/NEUBIAS_AnalystSchool2019

NEUBIAS Bioimage Analyst School 2020#

Marion Louveaux, Stéphane Verger, Arianne Bercowsky Rama, Ignacio Arganda-Carreras, Estibaliz Gómez-de-Mariscal, Kota Miura, et al.

Licensed UNKNOWN

Tags: Neubias, Bioimage Analysis

Content type: Slide, Code, Notebook

miura/NEUBIAS_AnalystSchool2020

NFDI - Daten als gemeinsames Gut für exzellente Forschung, organisiert durch die Wissenschaft in Deutschland.#

Licensed UNKNOWN

Schritt für Schritt verbessern wir die Nutzungsmöglichkeiten von Daten für Wissenschaft und Gesellschaft. Durch unser Zusammenwirken im NFDI-Verein entsteht eine Dachorganisation für das Forschungsdatenmanagement in allen Wissenschaftszweigen.

Tags: Nfdi4Bioimage, Research Data Management

Content type: Website

https://www.nfdi.de/

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

New report highlights the scientific impact of open source software#

UNKNOWN

Published UNKNOWN

Licensed UNKNOWN

Tags: Open Source, Alphafold

Content type: Report, Blog Post

https://www.statnews.com/sponsor/2024/11/26/new-report-highlights-the-scientific-impact-of-open-source-software/

Nextflow Demo Pipelines for Image Processing#

Licensed UNKNOWN

Content type: Code

JaneliaSciComp/nf-demos

OME-Zarr course#

Bugra Oezdemir, Christian Tischer

Licensed UNKNOWN

Content type: Tutorial

https://git.embl.de/oezdemir/course_scripts#ome-zarr-course

OMERO documentation#

Licensed UNKNOWN

Tags: OMERO

Content type: Documentation

https://omero.readthedocs.io/en/stable/

Python Workshop - Image Processing#

Karin Sasaki, Jonas Hartmann

Licensed UNKNOWN

Tags: Python

Content type: Code, Notebook

karinsasaki/python-workshop-image-processing

QuPath for Python programmers#

Alan O’Callaghan, Léo Leplat

Published 2024-10-23

Licensed UNKNOWN

These are the notebooks and associated files for the i2k 2024 QuPath for Python programmers workshop.

Tags: Python, Notebooks, Open Source Software, Bioimage Analysis

Content type: Github Repository, Notebook, Collection

qupath/i2k-qupath-for-python-programmers

RDM4mic#

Licensed UNKNOWN

Tags: Research Data Management, OMERO

Content type: Collection, Video

https://www.youtube.com/@RDM4mic

RDMO - Research Data Management Organiser#

Licensed UNKNOWN

Der Research Data Management Organiser (RDMO) unterstützt Forschungsprojekte bei der Planung, Umsetzung und Verwaltung aller Aufgaben des Forschungsdatenmanagements.

Tags: Research Data Management, Open Source Software

Content type: Website, Online Tutorial

https://rdmorganiser.github.io/

RDM_system_connector#

SaibotMagd

Licensed UNKNOWN

This tool is intended to link different research data management platforms with each other.

Tags: Research Data Management, Image Data Management

Content type: Github Repository

SaibotMagd/RDM_system_connector

Reference Collection to push back against “Common Statistical Myths”#

Andrew Althouse

Published 2023-06-29

Licensed UNKNOWN

Reference Collection to understand how to deal with common statistical myths.

Tags: Statistics

Content type: Wiki

https://discourse.datamethods.org/t/reference-collection-to-push-back-against-common-statistical-myths/1787

Reporting and reproducibility in microscopy#

Published 2021-12-03

Licensed UNKNOWN

This Focus issue features a series of papers offering guidelines and tools for improving the tracking and reporting of microscopy metadata with an emphasis on reproducibility and data re-use.

Tags: Reproducibility, Metadata, Bioimage Data

Content type: Collection

https://www.nature.com/collections/djiciihhjh

Research data - what are the key issues to consider when publishing this kind of material?#

Licensed UNKNOWN

The website offers detailed advice on publishing research data, focusing on key issues like data management, FAIR data principles, legal considerations, and repository selection.

Tags: Research Data Management, FAIR-Principles, Licensing

Content type: Tutorial

https://www.publisso.de/en/advice/publishing-advice-faqs/research-data

Scripts_FilopodyanR - a case study for the NEUBIAS TS7 in Szeged#

Marion Louveaux

Licensed UNKNOWN

Tags: Neubias, Bioimage Analysis

Content type: Code

marionlouveaux/NEUBIAS2018_TS7

Setting up a data management infrastructure for bioimaging#

Susanne Kunis, Karen Bernhardt, Michael Hensel

Licensed UNKNOWN

Tags: Nfdi4Bioimage, Research Data Management

Content type: Publication

https://doi.org/10.1515/hsz-2022-0304

Setting up a remote desktop to use Napari in a browser#

Volker Hilsenstein

Licensed UNKNOWN

Content type: Tutorial

VolkerH/Jupyter-Napari-Desktop

Source Control Using Git and GitHub#

Licensed UNKNOWN

Content type: Tutorial

JaneliaSciComp/2020AprilGitCourse

Statistical Rethinking#

Richard McElreath

Published 2023-01-02

Licensed UNKNOWN

Video Lectures for Statistical Rethinking Course

Tags: Statistics

Content type: Youtube Video

https://www.youtube.com/playlist?list=PLDcUM9US4XdPz-KxHM4XHt7uUVGWWVSus

TESS training materials#

Licensed UNKNOWN

Tags: Bioinformatics

Content type: Collection

https://tess.elixir-europe.org/materials

Tess Search for Data Life Cycle#

Licensed UNKNOWN

Tags: Data Life Cycle, Research Data Management

Content type: Collection

https://tess.elixir-europe.org/search?q=data+life+cycle#materials

The BioImage Archive – Building a Home for Life-Sciences Microscopy Data#

Matthew Hartley, Gerard J. Kleywegt, Ardan Patwardhan, Ugis Sarkans, Jason R. Swedlow, Alvis Brazma

Published 2022-06-22

Licensed UNKNOWN

The BioImage Archive is a new archival data resource at the European Bioinformatics Institute (EMBL-EBI).

Tags: Image Data Management, Research Data Management, Bioimage Data

Content type: Publication

https://www.sciencedirect.com/science/article/pii/S0022283622000791?via%3Dihub

https://doi.org/10.1016/j.jmb.2022.167505

Towards community-driven metadata standards for light microscopy - tiered specifications extending the OME model#

Mathias Hammer, Maximiliaan Huisman, Alessandro Rigano, Ulrike Boehm, James J. Chambers, et al.

Published 2022-07-10

Licensed UNKNOWN

Rigorous record-keeping and quality control are required to ensure the quality, reproducibility and value of imaging data. The 4DN Initiative and BINA here propose light Microscopy Metadata specifications that extend the OME data model, scale with experimental intent and complexity, and make it possible for scientists to create comprehensive records of imaging experiments.

Tags: Reproducibility, Microscopy Image Analysis, Metadata, Image Data Management, Bioimage Data

Content type: Publication

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9271325/

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

Upcoming Image Analysis Events#

Curtis Rueden, Albane de la Villegeorges, Simon F. Nørrelykke, Romain Guiet, Olivier Burri, et al.

Licensed UNKNOWN

Tags: Bioimage Analysis, Microscopy Image Analysis

Content type: Collection, Event, Forum Post, Workshop

https://forum.image.sc/t/upcoming-image-analysis-events/60018/67

What is Bioimage Analysis? An Introduction#

Kota Miura

Licensed UNKNOWN

Tags: Neubias, Bioimage Analysis

Content type: Slide

https://www.dropbox.com/s/5abw3cvxrhpobg4/20220923_DefragmentationTS.pdf?dl=0

ZIDAS 2020 Introduction to Deep Learning#

Estibaliz Gómez-de-Mariscal

Licensed UNKNOWN

Tags: Artificial Intelligence, Bioimage Analysis

Content type: Slide

esgomezm/zidas2020_intro_DL

i2k-2020-s3-zarr-workshop#

Constantin Pape, Christian Tischer

Licensed UNKNOWN

Tags: Python, Big Data

Content type: Github Repository

tischi/i2k-2020-s3-zarr-workshop

Contents