Overview

Group Workinars & Quotations

Basic Workshops

Intermediate Workshops

Advanced Workshops

Prerequisites

Recommended Workshop Combinations

Workshop Calendar (see who offers BioVoxxel Courses to their students)

Why Education in Image Analysis is Important

Group Workinars

General information

  • Target audience: PhD programs (e.g. graduate schools, SFBs, research training groups, etc.)
  • 2 days online workinar (via Zoom), daily 9:00 to 15:00 (CET)
  • Live, guided by Dr. Jan Brocher and interactive
  • up to 12-15 participants (course dependent, see below)
  • Perfect to be complemented with our online self-learning courses
  • Group price includes:
    • preparation
    • course material
    • individual participation certificate
  • Feedback retrieval (optional)

If you are interested in multiple Workshops please consider that some partially build up on the knowledge of others.

Click here to find recommended optimal Workshop and Live/Online Course combinations

If you are an individual student and not part of a graduate program or did not get access to a group course at your institution, please check out the individual online self-study courses.

Basic

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Scientific Image Editing and Figure Creation

Best practice in handling and editing of scientific images for publications and efficient figure creation methods according to highest ethical standards.

  • Proper and efficient image editing for publications
  • Handling channels, colors, calibration and sale bars
  • Good scientific principles for publication figures
  • Diverse image correction methods (lighting, background,…)
  • Correct contrast adjustment for publications
  • Prevent data-loss at each step towards your figure!
  • Efficient figure creation in Inkscape
  • Up to 15 participants
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Scientific Illustration

Communication of scientific results and research goes beyond tables and graphs.Visual presentation of key concepts can optimally convey your science in an understandable, catchy and attention grabbing way. This Masterclass shows you how.

  • Introduction to Inkscape and its workspace
  • Proper use of colors and color combinations for scientific communication
  • From basic shapes to stunning 3D visuals
  • Shading, gradients, image-blending, labeling, and more
  • Integrate external data into your design (e.g. PDB protein structures)
  • Complete one big design project step-by-step from scratch
  • Up to 12 participants

Intermediate

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Basic Microscopic Image Processing and Analysis

Learn all necessary basics to understand and perform image analysis and feature extraction step-by-step. Build the foundation for more advanced techniques.

  • Introduction to Fiji / ImageJ and basic functions
  • Proper scientific image file formats, metadata, and a lot more
  • Understand and successfully use image pre- and post-processing
  • Object detection and segmentation techniques
  • Automatic ROI (region of interest) creation
  • Basic insight into user friendly machine learning in Fiji
  • Quality control of segmentation results
  • Different basic automatic analyses such as object counting, measurements, shapes, intensities, and more
  • Info on how to extend the course knowledge to 3D data
  • Introduction to macro recording for analysis automation
  • Up to 15 participants

Advanced

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ImageJ Macro Scripting for Automatic Image Analysis

Bring image analysis to the next level with automated processing, feature extraction, analysis as well as file and data handling with ImageJ macro programming.

  • Basic ImageJ macro recording of a general image analysis pipeline
  • How to use variables and macro commands
  • Looping over image files, table data, ROIs
  • Interaction between user and macro
  • Customized measurements and objects classification
  • Interacting with customized tables
  • Handle folder structures and flexibly saving all data
  • Testing conditions and integrate automatic decision making
  • Write reusable functions and customized dialogs
  • Making your own ImageJ menu with your own macros
  • Up to 15 participants
  • Recommended: visit first the Basic Microscopic Image Processing and Analysis course
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From Pixels to Patterns: Applying Machine Learning Tools for Advanced Image Analysis

Complex image analysis tasks need next-level software tools and knowledge to extract meaningful data.

This course let’s you leverage the power of AI in image analysis.

  • Installing and connecting different software packages
  • Key concepts, benefits and limitations of ML in Image Analysis
  • Hands-on guided exercises of specific analysis solutions
  • Training pixel as well as object classifiers
  • Applying pre-trained deep learning (DL) models to images
  • Model improvement by customized re-training for non-programmers
  • Connecting different Tools via Fiji as hub to streamlined workflows
  • Up to 12 participants
  • Prerequisite: Basic Microscopic Image Processing and Analysis

Prerequisites

  • Access to or own personal computer (Windows, Linux, MacOS)
  • Proficiency in handling your computer in general
  • Possibility to install software on your computer (or administrator rights)
  • Stable internet connection
  • Mouse and Headset/Microphone
  • Optimally a webcam
  • Best 2 monitors to watch the workinar on one and do the practical part on the other.

Recommended Multi-Workshop / Course Combinations


Basic Scientific Image Analysis and Publication Figures

  • Scientific Image Editing and Figure Creation (Live)
  • Basic Microscopic Image Processing and Analysis (Live)

Scientific Publishing

  • Scientific Image Editing and Figure Creation (Live)
  • Scientific Illustration (Live)

Basic Image Analysis and Automation

  • Basic Microscopic Image Processing and Analysis (Live)
  • ImageJ Macro Scripting for Automatic Image Analysis (Live)

Basic and Advanced Image Analysis

  • Basic Microscopic Image Processing and Analysis (Live)
  • From Pixels to Patterns: Applying Machine Learning Tools for Advanced Image Analysis (Live)

Image Analysis Hero Live Bundle

  • Basic Microscopic Image Processing and Analysis (Live)
  • ImageJ Macro Scripting for Automatic Image Analysis (Live)
  • From Pixels to Patterns: Applying Machine Learning Tools for Advanced Image Analysis (Live)

Image Analysis Hero Live/Online Combi (Optimal to provide basics and to foster the individual learning process)

  • Basic Microscopic Image Processing and Analysis (Live)
  • Any of the following ones for individual participants:
    • ImageJ Macro Scripting for Automatic Image Analysis (Online)
    • From Pixels to Patterns: Applying Machine Learning Tools for Advanced Image Analysis (Online)

Analysis and Publishing Live/Online Combi (Optimal to provide basics and to foster the individual learning process)

  • Scientific Image Editing and Figure Creation (Live)
  • Basic Microscopic Image Processing and Analysis (Live)
  • Any of the following ones for individual participants:
    • ImageJ Macro Scripting for Automatic Image Analysis (Online)
    • From Pixels to Patterns: Applying Machine Learning Tools for Advanced Image Analysis (Online)
    • Scientific Illustration (Online)

In case of further questions, please contact BioVoxxel

Group Workshop Calendar

Why Education in Image Analysis?

The volume of life sciences publications is rapidly increasing, driven by advancements in imaging techniques and modern microscopy, enabling faster data acquisition in less time.

However, interpreting this data remains the responsibility of individual scientists and research groups. Given the growing speed and volume of data generation, it is crucial to understand data processing principles and adhere to scientific standards to ensure unaltered, meaningful datasets. Upholding scientific ethics and good laboratory practices is essential for maintaining data integrity and credibility.

Many (and not exclusively) early-career life scientists are unaware of the possibilities, limitations, and challenges of digital image analysis. Therefore, educating young academics on image handling, processing, and analysis early in their careers is vital to fostering efficient workflows and high scientific quality.

A key aspect of scientific publication is data presentation through figures and illustrations. Selecting representative images is the first critical step, followed by careful editing. It is essential to consider the intent behind image modifications—whether to enhance visibility, highlight regions of interest, remove artifacts, or support a hypothesis. Even well-intentioned edits can introduce bias or alter data, potentially leading to scientific misconduct. The Office of Research Integrity (ORI) reported that 68% of investigated misconduct cases in 2007–2008 involved image manipulation. Scientific images are valuable data and must be treated accordingly.

However, beyond guidelines, education in image processing, analysis, and publication ethics is essential.

Moreover, understandable data presentation can massively enhance successful communication of scientific research to peers as well as the general public. If in a conference presentation, a poster, in scientific publications or via social media, proper optical delivery is key for comprehension as well as recall of the own research by others.

BioVoxxel is committed to promote good scientific practices to prevent unintentional data alterations in analyses and publication figures. This involves also efficient data processing in automated manners to reduce errors and user bias. Additionally, BioVoxxel offers workshops in Scientific Illustration, teaching researchers how to effectively communicate data through graphical abstracts and schematic figures.

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