Moffitt ITN Workshops

Welcome to the ITN Moffitt Workshop Series!

Over the next two days we will cover the a variety of bioinformatics topics. Please feel free to refer to these materials in the future.

Wifi: Moffitt-Guest

Website: bit.ly/MoffittITN

Schedule

Day 1 (SRB Ferman Family Conference Room) - February 5: Time
Computing and Data Ethics for Cancer Informatics 9:30 AM - 11:00 AM
Tools for Genomics and Single-Cell RNA-seq 11:00 AM - 12:30 PM
Free Lunch! 12:30 PM - 1:30 PM
Tools for Spatial Transcriptomics 1:30 PM - 3:00 PM
Day 2 (SRB David Murphey Conference Room) - February 6: Time
Tools for Single-Cell Protein Imaging 9:30 AM -11:00 AM
Transforming the Machine Learning Workbench with Galaxy 11:00AM - 12:30 PM


Pre-requisites

This information was emailed to you, but you will need to register for the following resources based on the workshops you will be attending:

Workshop Galaxy spatialGE Posit Cloud
Computing and Data Ethics for Cancer Informatics
Tools for Genomics and Single-Cell RNA-seq
Tools for Spatial Transcriptomics
Tools for Single-Cell Protein Imaging
Transforming the Machine Learning Workbench with Galaxy


To create a Galaxy account, go to the Galaxy login page and click the “Don’t have an account? Register here.” link at the bottom.

To create a spatialGE account, go to spatialGE Website and click on “Sign Up” in the upper right corner.

To create a Posit Cloud account, go to the Posit Cloud website and sign up with any of the shown methods.

Accessing Computational Resources for further practice or your research

  • Galaxy: The training link will no longer work, and you should use usegalaxy.org to access the platform.
  • Posit Cloud: The workspace will be available until Feb 22, otherwise, you could use the free version of PositCloud https://posit.cloud/ to work with R in general (but does not have enough computing capacity to work with the data we used in our workshop). Alternatively, you could R/RStudio on your local machine or potentially on your institutional server.
  • spatialGE: You can continue using the link https://spatialge.moffitt.org/ and can also use the R package: https://github.com/FridleyLab/spatialGE

Galaxy offers training tutorials on a variety of topics! Visit https://training.galaxyproject.org/ to browse and search for specific tutorials of interest.

Relevant ITN courses for future learning

Workshop Relevant ITN Course(s)
Computing and Data Ethics for Cancer Informatics Computing for Cancer Informatics
Introduction to Reproducibility
Advanced Reproducibility
Ethical Data Handling
Tools for Genomics and Single-Cell RNA-seq Choosing Genomics Tools
Tools for Spatial Transcriptomics Choosing Genomics Tools
Tools for Single-Cell Protein Imaging Choosing Genomics Tools
Transforming the Machine Learning Workbench with Galaxy See www.itcrtraining.org for upcoming courses!