The Center for Research Computing offers Pitt faculty members free access to advanced computing and user support, and provides workshops and individual consultations for principal investigators and students.
Read more about the center in a 2018 article in the University Times.
The center’s fall workshops, several at the CRC’s offices in Schenley Place, kicked off on Sept. 12, but there are plenty more ahead this semester:
Getting Going with Pandas in Python: 1-4 p.m. Sept. 27, Falk Library, Scaife Hall, Conference Room B
In this workshop, attendees will work at their own pace to learn basic data science tasks in Pandas. Pandas is a fantastic Python package which provides data structures and analysis tools for data science tasks. The workshop will cover the data structures, selection, mapping functions, reductions, statistics, input/output, pivot tables, grouping, and time-series data. Basic knowledge of Python is required.
Register through the Health Science Library System. Do not register through CRC.
Basic Coding and Machine Learning with MATLAB: 1-4 p.m. Oct. 2, 311A Schenley Place
Discussion of different types of machine learning techniques and their workflows. The workshop will conclude with hands-on activity with real data using MATLAB Statistics and Machine Learning Toolbox. The presenter will be Elvira Osuna-Highley, senior customer success engineer at MathWorks, Inc.
To register: https://crc.pitt.edu/Register/CRC/Workshops/Fall/2019
R for Genomics: 1-4 p.m. Oct. 3, 311A Schenley Place
This workshop will provide hand-on experience with RStudio server on Open OnDemand. We will present some useful concepts for computations using the HTC cluster, and introduce the R and Bioconductor environment on the HTC cluster. Presented by CRC consultant Fangping Mu.
To register: https://crc.pitt.edu/Register/CRC/Workshops/Fall/2019
Learning Pandas: 1-4 p.m. Oct. 8, Hillman Library, Digital Scholarship Commons, G-49
A self-paced workshop using Jupyter notebooks to learn the Pandas library in Python. Presented by Pitt CRC consultant Barry Moore ll.
To register: https://pitt.libcal.com/calendar/today/pandas. Do not register through CRC.
RNA-Seq Analysis: 1-4 p.m. Oct. 10, 311A Schenley Place
This workshop will teach the participants RNASeq data analysis pipelines using command line tools, starting from fastq files and proceeding to QC, alignment, generating counts and performing differential expression. Prerequisites: Some familiarity with Illumina Sequencing, UNIX. Presented by Uma Chandran, Director, Genomics Analysis Core and Cancer Bioinformatics Service, and research associate professor, Department of Biomedical Informatics.
To register: https://crc.pitt.edu/Register/CRC/Workshops/Fall/2019
Cluster Training: Pitt-Johnstown: 1-4 p.m. Oct. 17, Room 238 Chemical Engineering Department, Pitt–Johnstown
We will go over the new hardware and modules, and the queuing system in production. We will present useful concepts for computations using SLURM, including queuing strategies, using scratch space, and trapping exit codes for restarts. Presented by Pitt CRC consultant Shervin Sammak.
To register: https://crc.pitt.edu/Register/CRC/Workshops/Fall/2019
Single-Cell RNA-Seq Data Analysis: 1-4 p.m. Oct. 24, 311A Schenley Place
This workshop will familiarize participants with 10X scRNAseq data analysis pipeline using publicly available data. The analysis starts with quality control, filtering (reads, cells, genes), normalization of scRNAseq data, followed by clustering and visualization for sub-population detection, population marker identification, differential gene expression analyses across sub-populations, and trajectory estimation. Prerequisites: Completion of a UNIX course, familiarity with R and Bioconductor packages. Presented by Dhivyaa Rajasundaram, research assistant professor in Pediatrics and core lead, Bioinformatics Core, UPMC Children’s Hospital.
To register: https://crc.pitt.edu/Register/CRC/Workshops/Fall/2019
Chip-Seq and ATAC-Seq: 1-4 p.m. Oct. 31, 311A Schenley Place
Hands-on training workshop on analysis of ChIP-seq and ATAC-seq data, covering data quality control, analytical steps such as alignment, peak calling, motif enrichment, and differential binding analysis, and an introduction to ATAC-seq data analysis for detecting open chromatin regions. Prerequisites: Completion of a UNIX course and familiarity with R and Bioconductor packages. Presented by Dhivyaa Rajasundaram, research assistant professor in Pediatrics and core lead, Bioinformatics Core, UPMC Children’s Hospital.
To register: https://crc.pitt.edu/Register/CRC/Workshops/Fall/2019