News:Virtual Single Cell RNA-seq Workshop
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7 months ago
mia.nahom ▴ 10

The Computational Biology Core at the University of Connecticut’s Institute for Systems Genomics is offering a virtual Single Cell RNA-seq workshop March 20-23, 2023.

The workshop will be run on a high performance computing cluster, and cover the basics of Linux and writing/submitting scripts. The goal is to familiarize attendees with concepts and approaches for designing and conducting single cell RNA-seq analyses. All code required to complete the full analysis will be provided in a public github repository, and session recordings will be available to all participants after the workshop

Dates: March 20-23, 2023 (4 days)

Time: 9:00am - 1:00pm (EST)

Location: Online (Zoom)

Cost: $350/$483 USD for UConn affiliated/External attendees.

Workshop schedule:

Day 1: Introduction to Linux and high performance computing.

Day 2-4:

Understanding the Considerations while designing single-cell RNA-seq experiment

Hands on steps to convert raw single-cell RNA-seq data to a count or expression matrix

Compute and assess QC of the datasets

Clustering of Cells (UMAP, tSNE) and identify cluster specific markers and annotating cell types.

Perform integration of different sample conditions.

Perform trajectory analysis in cell differentiation.


To register, please follow this link:

Workshop FAQ

Who should attend?

  • Anyone with keen interest in Single Cell RNA-seq. Prior course participants have included faculty, post docs, grad students, advanced undergraduates, staff, and industry researchers.

What are the prerequisites?

  • Prior bioinformatic experience is not required. We have dedicated the first day of workshop to the basics of Linux and high performance computing.

What do I need?

  • You will need your own laptop to use, have a recent version of R, RStudio installed, and some other applications. We will send you details of softwares and installation instructions with your registration acknowledgement email.

Can I bring my own data?

  • We will provide experimental datasets for use during the workshop, as this helps to keep the workshop moving. There will be time, however, to discuss your own datasets and how you might work with them outside of the workshop.

How much does it cost?

  • The registration fee is $483 and $350 for UConn affiliates. It is payable at the time of registration with credit card or KFS.

Where is the workshop?

  • It will be held virtually over Zoom, and will run from 9:00am to 12:00pm on the date indicated.

How do I apply?

  • All registration is “first-come, first-served.” There is no application process. Sign up as soon as possible to ensure your place in the workshop.


  • If you have any questions, please don’t hesitate to contact us at
single genomics cell expression rna-seq workshop gene • 351 views

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