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This page hosts explanations of all Dominic's repositories
Bioimage Analysis Lectures
Contents
Fiji/ImageJ
- 30 min Introduction to Fiji/ImageJ for bioimage/microscopy analysis.
- Introduction to Fiji/ImageJ - half-day course.
Python
- Introduction to Segmentation in Python.
- Introduction to Colocalization in Python.
- Introduction to Data Fitting and Time Series Analysis.
Fiji/ImageJ
Introduction to Fiji/ImageJ for bioimage/microscopy analysis
Description:
This lecture is a 30 min introduction into bioimage analysis applied to microscopy using Fiji/ImageJ as a tool to describe and inspect images. This lecture was originally delivered at MMC2019 conference.
Duration:
30 mins
Resources:
- Lecture Slides: 30 min Introduction to Fiji/ImageJ for bioimage/microscopy analysis.
- Recorded Lecture: 30 min Introduction to Fiji/ImageJ for bioimage/microscopy analysis.
Introduction to Fiji/ImageJ - half-day course.
Description:
This is a integrated lecture and practical which introduce the principles of image formation and image analysis using Fiji/ImageJ as an exploratory tool. The accompanying practical and dataset are a self-contained exercises which shoud be completed subsequently to following the leccture. The lecture and practical has been given internally in Oxford university over many years.
Duration:
3.5 hours
Resources:
- Lecture Slides: Introduction to Fiji/ImageJ.
- Practical Worksheet: 2018 Fiji Intro v7.
- Practical Datasets: 2016 Fiji intro v6 imgs.
Python
Lecture on Segmentation. 2019 IAFIG Bioimage Analysis Python Course.
Description:
This lecture describes the main types of segmentation methods applied to bioimage analysis and microscopy. The content includes a introduction to segmentation as well as a review of different methods as well as walk-through common pipelines for segmentation. This lecture was originally presented during the 2019 Cambridge IAFIG Python Bioimage Analysis course which can found here: Python Bioimage Analysis Course
Duration:
40 mins
Resources:
- Lecture Slides: Segmentation
- Recorded Lecture: Lecture on Segmentation.
Introduction to Colocalization. 2019 IAFIG Bioimage Analysis Python Course.
Description:
This lecture describes the main types of colocalizatin analysis methods applied to bioimage analysis and microscopy. The lecture includes explanations of the Pearson’s test, Mander’s test and object-based colocalization methods. This lecture was originally presented during the 2019 Cambridge IAFIG Python Bioimage Analysis course which can found here: Python Bioimage Analysis Course
Duration:
40 mins
Resources:
- Lecture slides: Colocalization Analysis
- Recorded Lecture: Lecture on Colocalization.
Introduction to Data Fitting and Time Series Analysis. 2019 IAFIG Bioimage Analysis Python Course.
Description:
This lecture introduces the numerical and analystical methods of optimisation and how data fitting is applied to bioimage analysis and microscopy. The lecture also introduces different type of time series analysis and the type of methods which produce this data.. This lecture was originally presented during the 2019 Cambridge IAFIG Python Bioimage Analysis course which can found here: Python Bioimage Analysis Course
Duration:
45 mins
Resources:
- Lecture slides: Data Fitting and Time Series Analysis
- Recorded Lecture: Lecture on Data Fitting and Time Series Analysis:
