Summer Workshop Series
Introduction
The UIC Research Informatics Core (RIC) is presenting a five-part introduction to bioinformatics workshop. Common bioinformatics techniques and methods will be reviewed, with an emphasis on practical skills in statistical analysis and data interpretation for applications in next-generation sequencing (NGS) data sets.
Registration is OPEN!. Go to https://go.uic.edu/RICWorkshops to register for this year's Summer Workshop Series.
Details
logistics
- When: June 24-26 and June 30, July 1st
- Where: VIRTUAL and IN-PERSON
- Virtual: Via Zoom
- In-Person: Molecular Biology Research Building (MBRB), Rm 1152
- Time: 9 AM to 4:45 PM
- Food: Light refreshments and lunch will be provided to in-person participants
- Computer Requirements: Computer with at least: 4GB RAM, 10GB free storage. Must be 64-bit architecture. A list of additional software to be installed prior to the workshop is available at this wiki page.
Cost
- UIC/CBC:
- Virtual: $145/day, $636 all days
- In-person: $175/day, $770 all days
UIC graduate students receive 60% discount on registration, sponsored by UIC CCTS
- Non-UIC rate markup:
- Rush: 10%
- External: 60%
Workshop Sessions
The following workshops days will be offered for this series. Choose any or all of the days that suit your skills needs.
Tues, June 24th: Introduction to R
Learn the R studio interface and programming language, including data types, basic programming, reading and writing data, installing packages, basic statistics and data visualization.
Wed, June 26th: 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.
Thus, June 26th: 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 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 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.
Mon, June 30th: 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 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 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.
Tues, July 1st: 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 Introduction to R 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
- Cancellation Policy:
- Notification must be given by June 8th.
- 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.