Training

With funding from the HMS Tools and Technology Committee and the Harvard Stem Cell Institute (HSCI) we have a dedicated bioinformatics training program for:

  • HMS researchers with a primary affiliation in one of the Basic and Social Science Departments on the Quad
  • HSCI researchers

In addition, we also teach short courses for Harvard Catalyst.


Upcoming workshops/courses:

Please find a list of our various offerings below categorized by eligibility. If you would like to receive emails from us about training opportunities, please fill out this form.

For HSCI and on-quad HMS researchers

Topic Category Date Duration Prerequisites
Introduction to differential gene expression analysis (bulk RNA-seq) Advanced April 1st and 2nd 2 days Intro to R
Introduction to the command-line interface (shell) Basic April 11th 1 day None
Introduction to ChIP-seq analysis Advanced April 29th and 30th 2 days Intro to R & shell

Click here for additional information about these workshops and our new program.

For all researchers at Harvard University and affiliated institutions

HBC’s monthly short workshops

Current Topics in Bioinformatics - Spring 2019
  • Hands-on workshops on bioinformatics topics & related skills
  • Once a month for 3 hours
  • First-come-first-served, no registration required
  • Free and open to everyone at Harvard University and its affiliates
Spring 2019 Schedule:
Topic Date Time Location Pre requisites
Introduction to R January 10th 1 PM Kresge (HSPH), room 502 None
Introduction to tidyverse and visualizations with ggplot2 February 6th 1 PM FXB (HSPH), room G12 Beginner R
Gene annotations and functional analysis of gene lists March 6th 1 PM FXB (HSPH), room G12 Beginner R
Generating research analysis reports with RMarkdown April 3rd 1 PM FXB (HSPH), room G12 Beginner R

Harvard Catalyst Workshops

Harvard Catalyst workshops for Fall 2019 will be announced in Summer 2019!

Other workshops on data skills and bioinformatics


Training program description:

We provide bioinformatics training through both shorter workshops and in-depth courses. [Click here for a list of upcoming workshops/courses]

1. Workshops

These workshops vary in duration from half-day to 3 days and are aimed at biologists interested in expanding their knowledge of Next-Generation Sequence (NGS) data analysis, and basic computational skills for working with big or small datasets.

  • Next-Generation Sequencing

    Short workshops on RNA-Seq, ChIP-Seq to introduce basic concepts of Next-Generation Sequencing (NGS) analysis. The goal of these workshops are to enable researchers to design their studies appropriately and perform preliminary data analyses using best practices.

  • Basic Skills for Data Analysis

    Topics include R, data visualization using R, Linux shell, High-Performance Computing (HPC), version control, Research Data Management, etc.

2. In-Depth Next Generation Sequencing Analysis Courses

These intensive courses run for 8-12 days and are aimed at bench biologists interested in learning how to perform independent, best practice NGS-based analyses. Topics include:

  • Unix & High-Performance Computing (O2)
  • NGS data analysis (RNA-Seq, ChIP-Seq, Variant calling)
  • Statistical analysis using R
  • Functional analysis

No prior NGS or command line expertise is required for our workshops or courses unless explicitly stated.


Past Workshops:

2018

  • [HSCI/TnT] December 5th & 6th: Introduction to R
  • [Harvard Catalyst] October 31st - November 2nd & November 14th - 16th **Introduction to RNA-seq Analysis Using High-Performance Computing and R. **
  • [HSCI/TnT/HNDC] September 5th - October 11th: In-depth NGS data analysis course
  • [HSCI/TnT] August 20th & 21st: Introduction to R
  • [HSCI/TnT] July 30th & 31st, August 1st: Introduction to ChIP-seq using high-performance computing
  • [HSCI/TnT] June 11th - 13th: Introduction to R and Differential Gene Expression (DGE) analysis for RNA-seq
  • [HSCI/TnT] May 30th & May 31st: Introduction to shell and high-performance computing
  • [HSCI/TnT] April 30th & May 1st: Introduction to R
  • [Harvard Catalyst] April 5th, 6th, 12th, 13th: Introduction to R and Differential Gene Expression (DGE) analysis for RNA-seq
  • [HSCI/TnT] March 21st - 23rd: Introduction to ChIP-seq using high-performance computing
  • [HSCI/TnT] February 26th - 28th: Introduction to R and Differential Gene Expression (DGE) analysis for RNA-seq
  • [HSCI/TnT] January 29th - 31st: Introduction to RNA-seq using high-performance computing

2017

  • [HSCI/TnT/HNDC] December 6th & 7th: Introduction to R
  • [HSCI/TnT/HNDC] November 20th & 21st: Introduction to RNA-seq using high-performance computing
  • [Harvard Catalyst] November 1st - 3rd: Introduction to R and Differential Gene Expression (DGE) analysis for RNA-seq
  • [HSCI/TnT/HNDC] October 25th & 26th: Using DESeq2 for Differential Gene Expression
  • [Harvard Catalyst] September 25th - 27th: Introduction to RNA-seq using high-performance computing
  • [HSCI/TnT/HNDC] September 13th & 14th: Introduction to R
  • [HSCI/TnT/HNDC] August 23rd & 24th: Introduction to RNA-seq using high-performance computing
  • [HSCI/TnT/HNDC] May 31st - July 7th: In-depth NGS data analysis course
  • [Harvard Catalyst] May 17th - 19th: Introduction to R and Differential Gene Expression (DGE) analysis for RNA-seq
  • [HNDC] April 20th: Introduction to R
  • [HSCI/TnT/HNDC] April 3rd & 4th: Introduction to R
  • [Harvard Catalyst] March 16th: Introduction to RNA-seq with Galaxy
  • [HSCI] March 6th & 7th: Introduction to UNIX and Orchestra with HMS-RC
  • [HSCI/TnT/HNDC] February 15th: Introduction to Differential Gene Expression (DGE) analysis for RNA-seq
  • [TnT/HNDC] February 10th & 13th: Introduction to R
  • [HSCI] January 24th & 25th: Introduction to R

2016

  • [Harvard Catalyst] November 17th & 18th: Introduction to UNIX and Orchestra with HMS-RC
  • [HSCI/TnT/HNDC] October 31st - December 2nd: In-depth NGS data analysis course (RNA-Seq)
  • [HSCI/TnT/HNDC] October 20th: Introduction to Differential Gene Expression (DGE) analysis for RNA-seq
  • [Harvard Catalyst] October 14th: Introduction to RNA-seq with Galaxy
  • [TnT/HNDC] September 29th & 30th: Introduction to R
  • [HSCI] September 8th & 9th: Introduction to R
  • [HSCI] August 22nd & 23rd: Introduction to UNIX and Orchestra with HMS-RC
  • [HSCI/TnT/HNDC] June 22nd - August 12th: In-depth NGS data analysis course
  • [HSCI] May 23rd & 24th: Introduction to UNIX and Orchestra with HMS-RC
  • [TnT/HNDC] May 12th & 12th: Introduction to UNIX and Orchestra with HMS-RC
  • [HSCI/TnT/HNDC] February 8th - March 8th: In-depth NGS data analysis course

2015

  • [HSCI] December 11th: Introduction to R
  • [TnT/HNDC] November 23rd: Introduction to RNA-seq with Galaxy
  • [HSCI] November 13th: Introduction to RNA-seq with Galaxy
  • [TnT/HNDC] October 8th & 9th: Introduction to UNIX and Orchestra with HMS-RC
  • [TnT/HNDC] October 2nd: Introduction to RNA-seq with Galaxy
  • [TnT/HNDC] September 21st: Introduction to RNA-seq with Galaxy
  • [TnT/HNDC] September 11th: ChIP-Seq with Galaxy
  • [TnT/HNDC] August 14th: Introduction to RNA-seq with Galaxy
  • [TnT/HNDC] July 22nd: A Hands-on Introduction to Python (in collaboration with IQSS)
  • [TnT/HNDC] July 17th: Introduction to RNA-seq with Galaxy
  • [TnT/HNDC] June 26th: Introduction to R and R graphics with ggplot2 (in collaboration with IQSS)

Contact:

For any training-related questions, please email us at hbctraining@hsph.harvard.edu.

Training materials can be accessed here. Please read our licensing information prior to reusing or adapting our materials.