Other Training and Documentation

Resources In Seattle

• UW Biostatistics Summer Institutes offer yearly intensive courses over the summers on a wide variety of topics.
• Meetup hosts various coding groups that meet regularly to share skills and provide networking opportunities. RLadies Seattle and Seattle UseR both include leaders from Fred Hutch.

External Resources On the Web

Classroom-Style Courses

These resources are organized in a lecture type format as slides, screencasts, and video. Most are work-at-your-own-pace, but some may be linked to a course calander.

• Hutch Learning playlist for Coding & Programming
• MCB517A: Tools for Computational Biology: A graduate-level course taught for UW by Fred Hutch CompBio faculty. This links to a GitHub repository that includes all lectures and homework.
  • How to install necessary software for this course
  • Ask questions about this course
  • Course materials all available for free
• edX: Offers a collection of courses for Data Analysis and Statistics and Bioinformatics
  • Rafael Irizarry of Dana Farber has online programs available through edX:
    • Introduction to Data Science
    • Data Analysis for Life Sciences
    • Data Anaysis for Genomics
  • Generally speaking, edX courses are all free to audit for a limited period of time. Unlimited access and the ability to earn a course Certificate will require payment
• Coursera: Offers a collection of courses for Data Science and Bioinformatics
  • R Programming: A beginner-level program has five mini-courses. It takes about 4 months to complete.
  • Statistics with R: A beginner-level program with five mini-courses. It takes about 7 months to complete.
  • Genomic Data Science: An intermediate-level program for those who are already aquainted with R. It has eight mini-courses. It takes about 6 months to complete.
  • Python Programming: An intermediate-level program that takes about 4 months to complete.
  • Coursera offers a 7-day free trial, and is a paid subscription service after
• Udacity: Offers a collection of courses for Data Science
  • Udacity is a paid subscription service
  • Currently offering one month free for their Nanodegree programs.
• Udemy: Offers a collection of courses for Data Science
  • Udemy offers courses at various price points.
  • Keep an eye out for sales which happen regularly and can drastically reduce the cost.
• CognitiveClass.ai Offers a collection of courses for data science, AI, and cloud computing.
  • All courses are free
• The Open Source Data Science Masters: An open-source curriculum for learning data science. This is a mixed media course made up of videos, books, and slides.
  • Some content is free, some is paid
• CalTech Learning from Data
  • A free YouTube series

Video Tutorials

Command Line

• Jesse Showalter - Command Line Basics (<15min video)
• Corey Schafer - Git Tutorial for Beginners: Command-Line Fundamentals (30 min video)

R

• Webinars from R studio (30 min - 1 hr / video)
  • Getting Started With R Markdown
  • Easy Ways to Collect Different Types of Data from the Web with R - Part 1
  • Easy Ways to Collect Different Types of Data from the Web with R - Part 2
  • Debugging Techniques in RStudio
  • A Gentle Introduction to Tidy Statistics in R
  • Managing Packages for Open Source Data Science
  • Tidyverse Visualization and Manipulation Basics
  • Introduction to Shiny

  For more RStudio video tutorials check out the following links: RStudio Webinars; RStudio Essentials Tutorials; RStudio Data Science Essentials Tutorials

Python

• Corey Schafer - Python beginners series (15 - 30 min / video)
  • Install and Setup for Mac and Windows
  • Strings - Working with Textual Data
  • Integers and Floats - Working with Numeric Data
  • Lists, Tuples, and Sets
  • Dictionaries - Working with Key-Value Pairs
  • Conditionals and Booleans
  • Loops and Iterations
  • Functions
  • Import Modules and Exploring The Standard Library

  See Corey’s YouTube Channel for more tutorials including intermediate and advanced Python topics

• Dataschool.io - Best Practices with Pandas (2 hr)

Core Coding Concepts

• Data Structures and Algorithms Series - Coding Dojo (15 - 30 min / video)

Interactive Coding Platforms

These resources offer classes that are work-at-your-own-pace with a major focus on hands-on problem-sets and projects.

• DataQuest: A subscription service that offers programs and courses focused on data anlysis and engineering in Python and R.
  • Tiered payment system with basic and premium plans
• CodeAcademy: A subscription service that offers coding programs and courses in many different languages.
  • Tiered payment system with limited content available for free

Free ebooks

• Biostar Handbook: A Beginner’s Guide to Bioinformatics

• R Cookbook Second Edition

• Advanced R

• R for Data Science

• O’Reilly books available through Seattle Public Library

Misc

• The Carpentries, with lessons from Data Carpentry and Software Carpentry

• ROSALIND interactive bioinformatics problem set