The training team at the Harvard Chan Bioinformatics Core provides bioinformatics training in multiple formats, they can be broadly divided into the following:
- Introduction to Next-Generation Sequencing (NGS) analysis series
- Current topics in bioinformatics series
Our current workshops and courses are designed to help biologists become comfortable with using tools to analyse high-throughput data. We are slowly beginning to expand this repertoire to include training for researchers with more advanced bioinformatics skills.
See our current workshop schedule on our training website.
This series of workshops is divided into 2 categories, Basic Data Skills and Advanced Topics. The Basic workshops serve as the foundation that participants can build upon in the Advanced workshops and we will be offering these as pairs with the appropriate basic workshop preceding and advanced one. Please see below for a description of workshops under each of these 2 categories.
These workshops provide an introduction to computational skills required for someone to get started with analyzing high-throughput sequencing data independently. These have no prerequisites and do not require any prior experience with programming.
| Topic and Link(s) to lessons | Prerequisites |
|---|---|
| Introduction to the command-line interface (shell) - O2 cluster | None |
| Introduction to the command-line interface (shell) - FAS-RC cluster | None |
| Introduction to R | None |
| Introduction to R (video tutorials) | None |
These are intensive workshops that instruct participants on how to design experiments, and efficiently manage & analyze data. They focus on the workflow for a specific type of next-generation sequencing application (i.e RNA-seq, ChIP-seq). These workshops require participants to have taken one or more of the Basic Data Skills workshops as listed in the table below.
| Topic and Link(s) to lessons | Prerequisites |
|---|---|
| Introduction to (bulk) RNA-seq using High-Performance Computing - O2 cluster | Introduction to shell |
| Introduction to (bulk) RNA-seq using High-Performance Computing - FAS-RC cluster | Introduction to shell |
| Introduction to Differential Gene Expression Analysis | Introduction to R |
| Understanding chromatin biology using high throughput sequencing - O2 cluster | Introduction to shell |
| Introduction to single cell RNA-seq Analysis | Introduction to R |
| Introduction to Variant Analysis | Introduction to shell |
| Tools for Reproducible Research | Introduction to R |
These workshops provide instruction on basic data skills as well as introduce new topics of interest to the community.
| Topic and Link(s) to lessons | Prerequisites |
|---|---|
| Introduction to R | None |
| Introduction to R Practical | Beginner R or Completion of the Intro to R online resource |
| Functional analysis of gene lists | Beginner R or Intro to R workshop |
| Generating research analysis reports with RMarkdown | Beginner R or Intro to R workshop |
| Publication Perfect: Part I | Beginner R or Completion of the Intro to R online resource |
| Publication Perfect: Part II | Publication Perfect: Part I |
| RShiny | Beginner R or Completion of the Intro to R online resource |
| Topic and Link(s) to lessons | Prerequisites |
|---|---|
| Introduction to Python | None |
| Planning a bulk RNA-seq analysis: Part I | None |
| Planning a bulk RNA-seq analysis: Part II | None |
| Make your (RNA-seq) data analysis reproducible- Taught by Julie Goldman from Countway Library | None |
| Improving your (RNA-seq) data analysis using version control (Git) - In collaboration with HBC-RCS | None |
Email: [email protected]
Webpage: http://bioinformatics.sph.harvard.edu/training/
Twitter: @bioinfocore