ISG CBC Workshop Schedule - 2025

Dates: January 13 - 15, 2026

Time: 10:00am - 2:00pm 

Location: Online

Cost:   $400 (UConn/UCH affiliates)

            $500 (External Participants)

Register

Workshop schedule

Day 1: Self-guided introduction to Linux and HPC (available 2 weeks ahead of workshop)

Day 2: Introduction to HTS, RAD-seq data and QC. File format basics. de novo RADseq variant calling with Stacks.

Day 3: Reference mapping-based variant calling with Stacks and Freebayes.

Day 4: Filtering and reformatting variant call sets. Basic population structure analyses and QC.

Registration

Registration Link

Workshop FAQ

Who should attend?

Anyone with interest in gene expression analyses.  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 $500 and $400 for UConn affiliates. It is payable at the time of registration with credit card or KFS.

Where is the workshop?

It will be held on Microsoft Teams, and will run from 10:00am to 2:00pm EST on the dates 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.

Questions?

If you have any questions, please don’t hesitate to contact us at cbcsupport@helpspotmail.com

Dates: January 27 - 29, 2026

Time: 10:00am - 2:00pm 

Location: Online

Cost:   $400 (UConn/UCH affiliates)

            $500 (External Participants)

Register

Workshop schedule

Day 1: Self-guided introduction to Linux and HPC (available 2 weeks ahead of workshop)

Day 2: Introduction to HTS, variant calling basics. Reference alignment and QC.

Day 3: Introduction to variant calling models and common pipelines (GATK, Freebayes, BCFtools).

Day 4: Filtering and comparing variant call sets. Annotating variant call sets. Parallelizing large variant calling runs.

Registration

Registration Link

Workshop FAQ

Who should attend?

Anyone with interest in gene expression analyses.  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 $500 and $400 for UConn affiliates. It is payable at the time of registration with credit card or KFS.

Where is the workshop?

It will be held on Microsoft Teams, and will run from 10:00am to 2:00pm EST on the dates 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.

Questions?

If you have any questions, please don’t hesitate to contact us at cbcsupport@helpspotmail.com

Dates: February 24 - 26, 2026

Time: 10:00am - 2:00pm 

Location: Online

Cost:   $400 (UConn/UCH affiliates)

            $500 (External Participants)

Register

Workshop schedule

Day 1: Self-guided introduction to Linux, HPC, and R (available 2 weeks ahead of workshop)

Day 2-4: Experimental design, high throughput sequencing basics, quality control, alignment to a reference genome, differential expression analysis, and gene ontology / gene set enrichment. Tools presented are appropriate for researchers working in systems with a reference genome.

Registration

Registration Link

Workshop FAQ

Who should attend?

Anyone with interest in gene expression analyses.  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 $500 and $400 for UConn affiliates. It is payable at the time of registration with credit card or KFS.

Where is the workshop?

It will be held on Microsoft Teams, and will run from 10:00am to 2:00pm EST on the dates 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.

Questions?

If you have any questions, please don’t hesitate to contact us at cbcsupport@helpspotmail.com

Dates: March 24 - 26, 2026

Time: 10:00am - 2:00pm 

Location: Online

Cost:   $400 (UConn/UCH affiliates)

            $500 (External Participants)

Register

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.

Registration

Registration 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 $500 and $400 for UConn affiliates. It is payable at the time of registration with credit card or KFS.

Where is the workshop?

It will be held on Microsoft Teams, and will run from 10:00am to 2:00pm EST on the dates 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.

Questions?

If you have any questions, please don’t hesitate to contact us at cbcsupport@helpspotmail.com

Dates: April 21 - 23, 2026

Time: 10:00am - 2:00pm 

Location: Online

Cost:   $400 (UConn/UCH affiliates)

            $500 (External Participants)

Register

Workshop schedule

Day 1: Self-guided introduction to Linux and HPC (available 2 weeks ahead of workshop)

Day 2: High-throughput sequencing, assembly strategies, quality control of data, contaminant detection

Day 3: Short Read and Hybrid Assembly

Day 4: Long Read Assembly, Evaluation

Registration

Registration Link

Workshop FAQ

Who should attend?

Anyone with keen interest in Genome Assembly methods. 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 $500 and $400 for UConn affiliates. It is payable at the time of registration with credit card or KFS.

Where is the workshop?

It will be held on Microsoft Teams, and will run from 10:00am to 2:00pm EST on the dates 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.

Questions?

If you have any questions, please don’t hesitate to contact us at cbcsupport@helpspotmail.com

Dates: May 19 - 21, 2026

Time: 10:00am - 2:00pm 

Location: Online

Cost:   $400 (UConn/UCH affiliates)

            $500 (External Participants)

Register

Workshop schedule

Day 1: Self-guided introduction to Linux and HPC (available 2 weeks ahead of workshop)

Day 2: Introduction to HTS, Genome Assembly Validation, File Format Basics, and Repeats

Day 3: Helixer annotation with no evidence, BRAKER annotation with protein evidence

Day 4: EASEL with RNA-seq evidence and annotation evaluation

Registration

Registration Link

Workshop FAQ

Who should attend?

Anyone with keen interest in Genome Annotation methods. 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 $500 and $400 for UConn affiliates. It is payable at the time of registration with credit card or KFS.

Where is the workshop?

It will be held on Microsoft Teams, and will run from 10:00am to 2:00pm EST on the dates 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.

Questions?

If you have any questions, please don’t hesitate to contact us at cbcsupport@helpspotmail.com