Python for spatial data analysis
Python for spatial data analysis
13 June 2025, 9h30-17h00
General context
This course aims to prepare people who have no experience with Jupyter notebooks, conda environments, Pandas DataFrames, Numpy arrays, or plotting images for courses that make use of these Python packages, like the spatial data analysis course. Pandas DataFrames are typically used to store data tables for analysis (similar to R data frames), whereas Numpy arrays are often used to store image data. Matplotlib is a popular Python package for creating visualizations like images but also plots of your data. All these components are heavily used in the spatial data analysis pipelines (but also in other omics pipelines).
The course will give you enough background knowledge to understand the Python scripts that are used in the spatial data analysis course and to adjust them according to your needs.
The training will focus on the following topics:
- using Jupyter notebooks (as they are used in the spatial data analysis trainings)
- setting up a conda environment and using conda to install packages (as it is used in the spatial data analysis trainings)
- Pandas DataFrames: creation, retrieval, analysis
- NumPy arrays: creation, retrieval, and their use to store images
- plotting images (and very briefly: data) with matplotlib
Everyone who wants to follow the spatial data analysis course and has no experience with Jupyter notebooks, conda environments, pandas, numpy or matplotlib should follow this course.
Trainers
Janick Mathys
Janick tries to help VIB scientists analyze their data by offering bioinformatics training and support. Next to organizing trainings, creating e-learning courses and teaching statistics, R, Python, Linux, HPC, bulk and single cell RNA-Seq analysis, she consults scientists and develops pipelines for omics analyses. Before joining VIB, she worked as a post-doc at KULeuven, doing research on transcriptomics and transcription regulation. She coordinated the Master of Bioinformatics program of KULeuven and taught the course on Biological Databases.
Practical info
13 June 2025
Ghent - VIB/UGent FSVM II
Technologiepark 75
9052 Zwijnaarde
Belgium
13 June 2025
Ghent - VIB/UGent FSVM II
From Ghent Sint-Pieters station, you can take a bus to Technologiepark. Please check Routeplanner De Lijn for schedules.
13 June 2025
Ghent - VIB/UGent FSVM II
Looking for a custom cycling route? Try the online cycling route planner to easily and quickly identify the fastest, safest and/or most scenic route to any destination in Ghent.
Cycling route planner
Shared bicycles:
Several providers are active in the area.
Take a look at their platforms:
- Indigo Weel Pro app
- Bluebike
- DOTT
- BOLT eBikes
- Donkey Republic
There are also some public bicycle pumps at the park.
13 June 2025
Ghent - VIB/UGent FSVM II
There is only one entrance to Technologiepark. At the entrance, please take a ticket - Parking is only allowed in regular parking spots (for instance in front of the building) and in the parking tower. Parking alongside the roads or in other places where there is no regular parking is prohibited.
13 June 2025
Ghent - VIB/UGent FSVM II
room L4 of the FSVM2 building, Technologiepark, Gent