aswitwicka/training-modules

Materials for short, half-day workshops

Current Topics in Bioinformatics workshops

Audience	Computational Skills	Duration
Biologists	Beginner or intermediate R and/or beginner bash	2-3 hour workshops

Use https://tinyurl.com/hcbc-modules to access this page.

This repository has teaching materials for 2-3 hour, hands-on workshops covering a variety of topics related to bioinformatics data analysis. The workshops will lead participants through performing different types of analyses using R/RStudio or Linux.

Some workshops will require a working knowledge of R or completion of the Introduction to R workshop. Other workshops will require a working knowledge of the bash scripting language or completion of the Introduction to Shell workshop.

** NOTE: Detailed information and preparation instructions for each of the workshops can be found by clicking on the workshop links in the table below.

Workshop introduction slides are available here.

Current Workshops (click here for the schedule)

Lessons	Prerequisites
Introduction to R	None
Introduction to the tidyverse data science packages and visualizations with ggplot2	Beginner R or IntroR workshop
Gene annotations and functional analysis of gene lists	Beginner R or IntroR workshop
Generating research analysis reports with RMarkdown	Beginner R or IntroR workshop

All topics

Lessons	Prerequisites
Visualization in R	Beginner R or IntroR workshop
Functional analysis of gene lists	Beginner R or IntroR workshop
Introduction to the command-line interface	None
Intermediate bash	Beginner bash or Intro to the command-line interface
Version control using Git and Github	Beginner bash or Intro to the command-line interface
Accessing genomic reference and experimental sequencing data	Beginner bash or Intro to the command-line interface
Exploring genomic variants using GEMINI	Beginner bash or Intro to the command-line interface
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)	None

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These materials have been developed by members of the teaching team at the Harvard Chan Bioinformatics Core (HBC). These are open access materials distributed under the terms of the Creative Commons Attribution license (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.