Summer Workshop Series
Introduction
Please visit our iLab request page for current information on workshops. The summer workshop session is typically held in the end of June.
NOTE. In order to register you will need a UIC iLab account. If you do not have one please visit https://rrc.uic.edu/get-started/user-registration/.
Workshop Sessions
The following workshops days are offered in this series. You may join any or all of the days that suit your skills needs.
R Essentials for Data Analysis
Learn the RStudio interface and programming language, including data types, basic programming, reading and writing data, installing packages, and basic statistics. The workshop also covers data manipulation and programming, plotting with ggplot2, and additional statistical tests, including summary statistics, parametric and non-parametric tests, and multiple regression.
Introduction to Linux/HPC
Navigate and manipulate data using the Linux command-line interface, and how to log in to a high-performance compute (HPC) cluster and manage jobs. Introduction to the BASH programming language and the nano text editor.
Introduction to NGS
Standard analysis tools and procedures for NGS applications in the context of analyzing an ATAC-seq data set. Visualization of NGS data in genome browsers.
Pre-requisites:
This workshop day assumes knowledge and skills that will be covered in R Essentials for Data Analysis and Introduction to Linux/HPC workshop days (days 1 & 2). Registration for these pre-requisite days is strongly recommended unless the attendee is very confident in their abilities or has previously attended this workshop day. If an attendee opts out of pre-requisite workshop days, then they assume full responsibility for the level of skill required for the later workshop days.
Introduction to RNA-seq
Gene and isoform quantification and differential analysis for RNA-seq, leveraging skills from R and Linux days to build and run pipelines on an HPC cluster.
Pre-requisites:
This workshop day assumes knowledge and skills that will be covered in R Essentials for Data Analysis and Introduction to Linux/HPC workshop days (days 1-2). Registration for these pre-requisite days is strongly recommended unless the attendee is very confident in their abilities or has previously attended this workshop day. If an attendee opts out of pre-requisite workshop days, then they assume full responsibility for the level of skill required for the later workshop days.
Introduction to Metagenomics
Quantification of amplicon and shotgun libraries and a discussion of the pros and cons of each. Statistical analysis, such as alpha and beta diversity, and a comparison of taxonomic and functional quantification.
Pre-requisites:
This workshop day assumes knowledge and skills that will be covered in R Essentials for Data Analysis and Introduction to Linux/HPC workshop days (days 1-2). Registration for this pre-requisite days is strongly recommended unless the attendee is very confident in their abilities or has previously attended this workshop day. If an attendee opts out of pre-requisite workshop days, then they assume full responsibility for the level of skill required for the later workshop days.
Additional details
- Pre-requisite policy:
- Advanced Topics in R, Introduction to NGS, Introduction to RNA-seq, and Introduction to Metagenomicss workshop days (days 3-5) assume knowledge and skills that will be covered in Introduction to R and Introduction to Linux/HPC workshop days (days 1 & 2). Registration for these pre-requisite days is strongly recommended unless the attendee is very confident in their abilities. If an attendee opts out of pre-requisite workshop days, then they assume full responsibility for the level of skill required for the later workshop days.