Individual Self-Learning Courses
The online self-learning courses from BioVoxxel are the extended versions of the live group workshops.
They contain more material and exercises compared to the live workshops.
Check out the short content below. If you click on the Enroll buttons you get to the detailed course overviews for all published courses.
More information see below. More questions? See the FAQ section below.
Basic
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.
- over 5h hands-on video content (~ 40 videos)
- download material
- access to all course updates
- Detailed intro to Inkscape and its functions
- Proper use of and ways to pick colors for scientific communication
- Accelerate from basic shapes to stunning 3D visuals in Inkscape
- Integrate external data into your design (e.g. PDB protein structures)
- Add special effects with gradients and image-blending
- Create a complete big design project from scratch
- course certificate
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
- Visualization options for 3D data in publications
- Unspecific signal corrections (lighting, background,…)
- Correct contrast adjustment for publications
- Zoom-insets without data-loss with one click
- Efficient figure creation in Inkscape
Release plan: Summer/Fall 2025
Intermediate
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
Release plan: Summer/Fall 2025
Advanced
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
Release plan: Fall/Winter 2025
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
Release plan: Fall/Winter 2025
Publication Hero – Course Bundle
Streamline proper image handling, editing and publication figure creation and master scientific illustration.
Two courses in one bundle… pay less, get more
This bundle includes:
- Scientific Image Editing and Figure Creation
- Scientific Illustration
Release plan: Following the upper releases
Image Analysis Hero – Course Bundle
All you need from basics to AI-powered image analysis including automation with scripting.
Three courses in one bundle…
- Basic Microscopic Image Processing and Analysis
- ImageJ Macro Scripting for Automatic Image Analysis
- From Pixels to Patterns: Applying Machine Learning Tools for Advanced Image Analysis
Evolve from basic to pro in image analysis with this unbeatable offer
Release plan: Following the upper releases
General Info
At purchase you get an official invoice. In case you would like to reimburse the course fee with your employer make sure to use the proper address required. Invoices cannot be re-issued with formal changes (such as billing address) later on.
Initial course access is 3 years from the date of purchase, which can be extended if desired.
To be able to follow all practical exercises in the BioVoxxel courses there are some pre-requisites to consider:
- Computer with:
- possibilities to install software (such as Fiji, Inkscape, Ilastik, Miniconda,…)
- stable internet access
- computer mouse
- optimally, 2 monitors to watch and follow the exercises in parallel
- Computer System minimal requirement
- Windows 10/11
- Linux Jammy Jellyfish (and above)
- MacOS BigSur (and above)
BioVoxxel cannot guarantee that all software required for the courses runs flawless on all kinds of computer systems (especially not on MacOS) and we cannot offer installation help services for individuals. However, if you find a mistake or problem in the installation instructions please contact us.
Therefore, before you purchase a course, please try to install the software mentioned in the installation section (check if the course of interest offers a preview for the installation instructions) to test if it principally works.
FAQ
Why is the course access limited to 3 years?
A standard PhD thesis or PostDoc period is around that duration. We want to give you access for such a time to do the course initially and then come back and revisit the topics.
Times change and so does software and methods. After 3 years some courses might need substantial updates, will be discontinues or exchanged for new ones. You don’t want to rely on outdated methods.
Therefore, we ensure that the course content is up-to-date for minimally the time you own it. By then you might also already have internalized many of the procedures and not need the exercises anymore.
And let’s be honest… if you did not look at the course in 3 years at all, chances are low that you will thereafter.
Will everything work on all computer systems?
Generally it should.
However, we cannot guarantee that, since computer systems change rapidly and especially Apply introduces strong restrictions on open source software. So far, all tools work on all systems but we cannot speak for future software releases or other software developers.
Let us know if you encounter issues at some point.
More questions? Contact Biovoxxel