Slide Overview

Slides will be made available as a PDF printout document. These lessons can be reviewed prior to class start.

Introducing the Shell (L1)

Navigating the Shell (L2)

Wildcards & Nano (L3)

Searching & Redirection (L4)

Intro to Shell Scripting (L5)

RNA-Seq Overview (L7)

Accessing Public Data (L8)

Assessing FASTQC Outputs (L9)

• File Path to CE2: /gpfs1/cl/mmg3320/course_materials/FASTQC_example

Trimming & Filtering (L10)

Alignment (L11-13)

Alignment Outputs (L15)](12_align-outputs.pdf)

RSeQC (L16)](13_rseqc.pdf)

Counting Reads (L17)](14_counting_reads-slides.pdf)