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CRiP - Using R for data analysis

Vak 2018-2019

Admission requirements

• Knowledge of basic introductory statistics concepts (hypothesis testing, p-values, confidence intervals, standard statistical tests, such as the t-test)
• Knowledge of regression analysis
• Each student must bring a laptop with R and RStudio installed (see below).

Description

Period: 24 September 2018 - 5 October 2018

R (https://www.r-project.org/) is an open source environment for statistical computing that is gaining in popularity in many research areas, but especially in Bioinformatics. It is used for advanced statistical modelling, genetic data analysis, annotation, handling of large data sets, advanced and flexible plotting, and much more. This course focuses on R as a language for data handling and programming. No concrete novel statistical methods will be taught. Rather, this course teaches the basic skills needed to apply advanced statistical methods, programmed in R, on your own data.

Course objectives

After this course you will be able to:
• Perform basic statistical analyses in R
• Read data into R and export data
• Use R scripts and R markdown to make reproducible analyses
• Make advanced and beautiful graphics using ggplot2 library
• Use dplyr library for manipulating on large data tables
• Write functions in R to standardize and streamline analyses
• Explore and use packages with advanced statistical methods

Timetable

All course and group schedules are published on our LUMC scheduling website or on the LUMC scheduling app.

Mode of instruction

Lectures intermixed with practice time.

Course load

Total course load is the amount of EC’s multiplied with 28 hours.

Assessment method

A closing assignment at the end of the last lecture. The assignment is not graded (pass/no pass only).

Blackboard

Blackboard will be used during this course.

Reading list

R Cookbook. Paul Teetor. 2011. O’Reilly Media. ISBN 978-0596809157

Registration

Registration for FOS courses, H2W, Scientific Conduct, How to start, Course on Animal Science , and CRiP and Adv concepts courses takes place in lottery rounds in the beginning of July. After the lottery rounds: if you want to register for a course you are kindly asked to contact the student administration at masterbw-courses@lumc.nl.

Contact

masterbms-courses@lumc.nl

Remarks

Students should bring a laptop with RStudio installed and running:
• Go to the RStudio download page:
https://www.rstudio.com/products/rstudio/download/#download
• Select RStudio version appropriate for your laptop, download it and then install.
• Check whether you can start RStudio.

Materials:
• From the page https://barmsijs.lumc.nl/R_course download the course materials .zip file to your laptop.
• Unpack the zip file to a directory.
• Check whether you can open index.html file from the directory.