Data visualization in R - Summer Workshop

 

Introduction

R is a powerful statistical computing language, very efficient and versatile, allowing fast calculations and the display of accurate and elegant charts and tables. Also, its huge community of users support each other and almost every question you might have is already answered. R is used wherever there are data, including every scientific discipline and also industry you might think of. And that includes, of course, genomics, transcriptomics, and all the -omics that use NGS data. R users report that the benefits from learning R far outweigh the time and effort dedicated to learning it.

We present you with our workshop on NGS data visualization using R. The reason of choosing the R language is not only because its computing power, but also because it is perfect for plotting various scientific data, not only NGS. You will learn the basics of R, how to become proficient in data handling and the principles of data analysis. All this enables you to learn the power of R for data visualization, including making all the most common plots used in NGS publications, and even more.

Even though this workshop is focused on NGS data, the tools and elements taught here can be also used in other scientific disciplines, as previously mentioned.

 

During the workshop…

  • The teachers will provide lectures with hands-on exercises so the participants will consolidate and self-assess their progress in learning the course contents.
  • Workshop participants will perform all data analysis tasks themselves! One computer per participant will allow full engagement into the workshop.
  • The powerful computer infrastructure will be provided, no personal laptops are required/allowed.

Who should attend?

  • The event is intended for beginners in using the R language, or intermediate users who want to deepen their knowledge in data visualization.
  • If in doubt, do not hesitate to contact us.

What will you learn?

  • You will learn the basics of R like assigning variables, basic data types, using R as a calculator, and so on.
  • You will learn how to import data and mix different data sources.
  • You will learn how to do basic statistics with your data.
  • You will learn different kinds of plots for NGS data, including univariate to multivariate plots.
  • You will have the opportunity to communicate with an experienced team of speakers and other participants.

And what will you get?

  • At the last day of the week you will be provided with a bootable USB stick with all tools used and data analyzed
  • All your 4-day work stored and ready to be used immediately when you get back to your lab!

 

Logistics

Language: English

Registration fee includes: Workshop materials, lunches and coffee breaks. Please kindly notice that travel and other incidental expenses are the responsibility of attendees.


 

Workshop agenda

Day 1 - R language for data visualization

  • Introduction to R
  • Installing packages
  • Basic data types
  • Functions and debugging
  • Data simulation
     

Day 2 - Data handling and manipulation

  • Introduction to data analysis in R
  • Tidy data and cleaning data
  • Aggregate data
  • Joining tables
  • Basic statistics
     

Day 3 - Basics of creating graphs

  • Importing data
  • Intro to GGplot2
  • Univariate graphs
  • Bar plots
  • Pie charts
  • Histograms

Day 4 - Multivariable charts

  • Bivariate graphs
  • Scatter plot
  • Biplots (MA, Vulcano, PCA…)
  • Box plots
  • Heat maps
  • Multivariate graphs
  • Time-dependent graphs
     

Day 5 -  Relationship between variables

  • Other graphs (Dendrograms, Cnet plot)
  • Statistical models
  • Interactive graphs
  • Best practices of plotting
  •  

 


 

Speakers

The team of speakers is comprised of SEQme bioinformaticians focusing on data analysis and other related tasks capable to provide a comprehensive insight into the whole data analysis workflow in context.

Resources

A basic knowledge of BASH, Unix terminal and R usage are not necessary but advantageous. If you are a newbie to the field, we recommend you go through some tutorials – please follow for example this link or this link.

 

Special offer:

All our courses and workshops can also be organized at your workplace, for your working group. So as a tailor-made event. Some of our events were even created in this way - at the client's request. The advantage of this format is, of course, the ability to prepare a turnkey event for your team, reflect your specific requirements and needs, including the ability to work with your data. If you are interested, do not hesitate to contact us.



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