Kindly be aware that accessing the bioinformatics workshops materials located at the bottom of the page requires you to log in.
Bioinformatics workshops - Spring 2025
We continuously organize basic and advanced workshops on a wide range of bioinformatics topics. These workshops are designed to address practical issues often encountered in bioinformatics work. They are designed to help users understand and work with the CRCD clusters.
Free and open to everyone at University of Pittsburgh and its affiliates.
Participants must be physically present in order to participate. The conference room can accommodate ~30 attendees. Attendees are seated on a first-come, first-served basis. To ensure a high-quality experience for all participants and instructors, remote attendance is not accommodated.
Please note that you will need to bring your own laptop to connect to CRCD clusters. Access to CRCD clusters requires an account. If you do not yet have an account on CRCD clusters, we will create a temporary account for you. You will connect to Pitt wireless from your own laptop. You will logon ondemand.htc.crc.pitt.edu and run RStudio server, Jupyter Notebooks or submit batch jobs during the workshop. You do not need to install any software on your own laptop.
Some basic understanding of R or Python programming and the Linux environment will be advantageous, but is not required. All scripts will be carefully explained to allow all attendees understanding the rationale.
Register for all workshops:
10X single cell techniques and Getting started with Cellranger
Tuesday, Feb. 4, 1:00pm-4:00pm
Single cell core, Heidi Monroe + Oge Ezenwa
Single cell data analysis using Seurat
Tuesday, Feb. 11, 1:00pm-4:00pm
Oge Ezenwa
Single-cell trajectory inference methods
Tuesday, Feb. 18, 1:00pm-4:00pm
Silvia Liu
RNA velocity of single cells
Tuesday, Feb. 25, 1:00pm-4:00pm
Jishnu Das
Single cell gene regulatory network analysis
Tuesday, March 11, 1:00pm-4:00pm
Jishnu Das
Co-expression inference from single cell sequencing data
Tuesday, March 18, 1:00pm-4:00pm
Dhivyaa Rajasundaram
Integrative single cell RNA-seq and ATAC-seq data analysis
Tuesday, April 1, 1:00pm-4:00pm
Oge Ezenwa
Reference Mapping of single cell data
Tuesday, April 8, 1:00pm-4:00pm
Silvia Liu
Single cell TCR data analysis
Tuesday, April 15, 1:00pm-4:00pm
Dhivyaa Rajasundaram
Extra dates:
Tuesday, March 25, 1:00pm-4:00pm
Tuesday, April 22, 1:00pm-4:00pm
Tuesday, April 29, 1:00pm-4:00pm
Bioinformatics workshops - Older versions
| Semester | Links |
|---|---|
| Fall 2024 | Bioinformatics workshop materials |
| Spring 2024 | Bioinformatics workshop materials |
| Fall 2023 | Bioinformatics workshop materials |
| Spring 2023 | Bioinformatics workshop materials |
| Fall 2022 | Bioinformatics workshop materials |
| Summer 2022 | Bioinformatics workshop materials |
| Spring 2022 | Bioinformatics workshop materials |
| Fall 2021 | Bioinformatics workshop materials |
| Summer 2021 | Bioinformatics workshop materials |
| Spring 2021 | Bioinformatics workshop materials |
| Fall 2020 | Bioinformatics workshop materials |