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3-DAY INTENSIVE WORKSHOP

Command Line Bootcamp for Biologists

Transform from command line novice to confident user in just 3 days. Master the essential skills needed for modern bioinformatics research.

3 Days (9am-5pm EST)Max 20 participantsCertificate included

Next Session Starts

February 12, 2024

Monday-Wednesday, 9am-5pm EST

24 hours of live instruction
Hands-on exercises with real data
30-day post-workshop support
$4998 seats available
Reserve Your Seat

Comprehensive 3-Day Schedule

Day 1: Foundation

Morning (9am-12pm)

  • • Introduction to the terminal
  • • Understanding file systems
  • • Basic navigation commands
  • • Creating and managing directories

Afternoon (1pm-5pm)

  • • File operations and permissions
  • • Text processing basics
  • • Shell customization
  • • Practice with genomics files

Day 1 Project:

Organize a messy genomics dataset

Day 2: Tools & Systems

Morning (9am-12pm)

  • • Text editors deep dive
  • • Package management with conda
  • • Introduction to containers
  • • Software installation best practices

Afternoon (1pm-5pm)

  • • Introduction to HPC clusters
  • • Job scheduling with SLURM
  • • Resource management
  • • Monitoring and debugging jobs

Day 2 Project:

Submit your first cluster job

Day 3: Workflows

Morning (9am-12pm)

  • • Data transfer protocols
  • • Introduction to Git
  • • GitHub for collaboration
  • • Version control best practices

Afternoon (1pm-5pm)

  • • Sequence archive submissions
  • • Building analysis pipelines
  • • Automation with scripts
  • • Final project presentations

Day 3 Project:

Build a complete analysis workflow

Learn from Expert Instructors

Workshop Led By Bioinformatics Professionals

Our instructors are practicing bioinformaticians who use these tools daily in their research. They understand the challenges biologists face when learning computational skills and have developed teaching methods specifically for life scientists.

Teaching Philosophy

  • • Biology-first examples
  • • Learn by doing
  • • No assumption of prior knowledge
  • • Safe space for questions

Support Includes

  • • Live Q&A during sessions
  • • Slack channel access
  • • 1-on-1 troubleshooting
  • • 30-day follow-up support

Frequently Asked Questions

Do I need any prior command line experience?

No! This workshop is designed for complete beginners. We start with the absolute basics and build up your skills progressively over the three days.

What equipment do I need?

You'll need a computer (Mac or Linux preferred, Windows with WSL is fine), a stable internet connection, and a webcam for the interactive sessions.

Can I access the recordings later?

Yes! All sessions are recorded and you'll have access to them for 6 months after the workshop ends. Perfect for reviewing concepts or catching up if you miss anything.

Is there a certificate?

Yes, you'll receive a professional certificate of completion that you can add to your CV or LinkedIn profile.

What if I can't attend all sessions live?

While we recommend attending live for the best experience, we understand conflicts happen. You can watch recordings and our instructors will help you catch up during office hours.

Ready to Master the Command Line?

Join our next cohort and transform your bioinformatics capabilities in just 3 days.

Reserve Your Seat - Only 8 Left!