Bioinformatics Training and Education Program

BTEP Video Archive of Past Classes

Listed below are the video recordings of past BTEP events (classes, seminars, workshops).

Videos are hosted on various servers and may play slightly differently.

Some videos may be downloaded for local viewing.

Recorded Videos of Recent BTEP Classes

On-Line Classes 2023

BTEP Single Cell Half Day (March 23rd)

On-Line Classes 2022

Microbiome Analysis with QIIME 2

Course materials: Recording link:

Greg Caporaso: Toward Fully Reproducible Microbiome Multi-omics Bioinformatics with QIIME 2 (Oct 19th)

Recording link:

Bioinformatics for Beginners: RNA-Seq Data Analysis (Sept 27th – Dec 13th)

Course materials:

Qiagen Pathway Analysis for Beginners: Generating a Gene Network from Experimental Data (August 31)

Recording link: Qiagen IPA upcoming webinars and trainings Previously recorded webinars and trainings for IPA For questions, email Qiagen technical support:

Creating Publication Ready RNA-Seq Graphs in Partek Flow (Aug 24)

Recording link:

Bioinformatics Resources for CCR Scientists (July 26)

Recording link: Presentation slides: Presentation Intro to Bioinformatics Resources FINAL VERSION

Variant Analysis – Experimental Design, Best Practices, and Workflows (June 30)

Recording link: Presentation slides: Variant analysis – presentation 1 Variant analysis – presentation 2

Qlucore: Bulk RNA-Seq Data Analysis (June 29)

Recording link:

Data Wrangling with R (June 7 – July 7)

Course Materials:

Partek Flow: Bulk and Single Cell Gene Expression Visualization (May 18)

Recording link:

Qlucore: Import and analyze public data from SRA, GEO and TCGA (May 11)

Recording link:

Training: Access GEO, SRA, ArrayExpress, TCGA, GTEx and more with Qiagen IPA Land Explorer (April 20)

Recording link:

Single Cell RNA-Seq Analysis with Partek Flow (April 13)

Recording Link:

Qlucore: Pathway Analysis with Gene Set Enrichment Analysis (GSEA) (April 6)

Recording link:
  Recommended Resources:
  1. GSEA hands-on webinar_Qlucore.pdf
  2. GSEA in Qlucore.pdf
  3. GSEA_MSigDB Collections.pdf
  4. How to do Pathway Analysis A.pdf
  5. MSigDB Hallmark human gene sets UCSD.pdf
  6. PNAS-2005-Subramanian-GSEA.pdf


Data Visualization with R (April 5 – May 10)

Course Materials:
  • Lesson 1, April 5: Introduction to plot types Why R for data visualization? We will introduce the various plot types that will be generated throughout the course and will showcase related plots that you will be able to create in the future using the foundational skills gained. Recording link:
  • Lesson 2, April 12: Basics of ggplot2 In lesson 2 of the Data Visualization with R series we will focus on the basics of ggplot2, including the grammar of graphics philosophy and its application. This lesson will provide a hands on introduction to the ggplot2 syntax, geom functions, mapping and aesthetics, and plot layering. Recording link:
  • Lesson 3, April 19:  Scatter plots and ggplot2 customization In lesson 3 of the Data Visualization with R series we will continue the discussion on the grammar of graphics, with a focus on ggplot2 plot customization including axes labels, coordinate systems, axes scales, and themes. This hands on lesson will showcase these features of plot building through the generation of increasingly complex scatter plots using data included with a base R installation as well as RNASeq data. Recording link:
  • Lesson 4, April 26: Visualizing summary statistics with histograms, bar plots, and box plots In lesson 4 of the Data Visualization with R series we will learn to generate plots that will help with visualization of summary statistics including a bar plot with error bars, histogram, as well as the box and whiskers plot. Recording link:
  • Lesson 5, May 3: Visualizing clusters with heatmaps In lesson 5 of the Data Visualization with R series we will introduce the heatmap and dendrogram as tools for visualizing clusters in data. Recording link:
  • Lesson 6, May 10: Combining multiple plots to create a figure panel In lesson 6 of the Data Visualization with R series we will focus on generating sub plots and multi plot figure panels using ggplot2 associated packages. This will allow us to meet any figure limitations that scientific journals may have. Recording link:


Introducing QIIME2, a Powerful Platform for Microbiome Analysis (March 24)

QIIME2 is a powerful microbiome analysis platform with a wide array of tools that can be used throughout all stages of your microbiome workflow, from raw data to statistical evaluation and visualization. This course will provide an overview of QIIME2, which will include an introduction to the core plugins and methods available with a base QIIME2 installation, tools for reproducibility and visualization, features available for community support and help, and additional learning opportunities. Recording Link: Link to Slides: qiime2_overview

Qlucore: Single Cell Data, from 10x Output to Clustering, Cluster ID and Statistical Analysis in a Visual Qlucore Platform (February 23)

Recording link:

R Introductory Series (Jan – Feb)

This course will include a series of lessons for individuals new to R or with limited R experience. The purpose of this course is to introduce the foundational skills necessary to begin to analyze and visualize data in R. This course is not designed for those with intermediate R experience and is not tailored to any one specific type of analysis. Course documentation:

Partek Flow: Variant DNA-Seq Data Analysis (January 19)

Recording link:

Recorded Videos of Other BTEP Events

Distinguished Speaker Series  
NGS Analysis
Single Cell
Commercial Software