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Bioinformatics_workshop

Schedule

We will try our best to stick to this schedule, although it is a best guess. We may (likely) deviate from this depending on how we are doing for time as we progress. We understand that you may have other commitments and may not be able to be present 100% of the time.

Please let us know if you expect to be absent from any sessions, so that we know to move forward without you.

We have designed the schedule so that breaks are essentially built into the break out rooms, so you should feel free to take time during those sessions to stretch your legs and take a break.

Day1

  • 12:00-12:30 - Intro to workshop.
  • 12:30-1:00 - Intro. to bioinformatics (lecture, Dr. Owen Wilkins)
  • 1:05-2:00 - The UNIX shell/Bash
  • 2:05-2:55 - Intro. to next-generation sequencing (lecture, Dr. Fred Kolling)
  • 3:00-4:00 - Intro-to-NGS-data-analysis-I (FASTQ files)
  • 4:00-5:00 - Intro-to-NGS-data-analysis-II (BAM/SAM/CRAM files)

Day2

  • 12:00-12:10 - Day 1 recap & questions
  • 12:10-1:00 - Intro-to-NGS-data-analysis-III (BED/BigWig/count files)
  • 1:00-2:00 - Introduction to IGV
  • 2.15-3:00 - Installing and managing software
  • 3:10-5:00 - Basics of R programming

Day3

  • 12:00-12:10 - Day 2 recap & questions
  • 12:10-1:00 - Genomics with R & Bioconductor I (working with genomic regions)
  • 1:10-2:10 - Genomics with R & Bioconductor II (genome annotation/references)
  • 3:15-4:00 - Introduction to statistical inference for bioinformatics I
  • 4:00-4:50 - Introduction to statistical inference for bioinformatics II
  • 4:50-5:00 - Wrap-up & closing remarks