Analysis of single cell RNAseq (scRNAseq) data

Description

NOTE: this material is currently under development

[[links to other materials that have been adapted in this lesson]]

Software requirements for this course can be found on fredhutch.io’s Software page.

Tutorials

• cellranger.md: fastq file processing and mapping using on-premise compute resources at Fred Hutch. Requires an understanding of command line operations using Unix/bash shell.
• monocle: analysis and visualization of processed scRNAseq data using monocle and garnett, which requires an understanding of R code.

Resources

• Materials are described in the relevant markdown (*.md) files.
• solutions/ includes the solutions for all challenge questions included in tutorials.
• instructors.md includes information for instructors to facilitate teaching each lesson
• hackmdio.txt is an archive of the interactive webpage used during lessons