Single Cell RNA-seq analysis

What's Changed

• adding dropdown previews Day1 by @mistrm82 in #64
• adding snRNA-seq blurb to pre-reading by @mistrm82 in #63
• adding Day 2 dropdowns by @mistrm82 in #65
• shuffling the QC content for flow by @mistrm82 in #75
• fix minor typos & formatting by @kew24 in #81
• reviewed up to exploration of results by @Amelie-TGHN in #82
• break down the clustering explanation by @mistrm82 in #76
• started new section on Harmony by @Amelie-TGHN in #86
• harmony integration edits by @mistrm82 in #87
• SCT changes to lesson an code by @mistrm82 in #88
• SCT v2 by @mistrm82 in #92

New Contributors

• @kew24 made their first contribution in #81
• @Amelie-TGHN made their first contribution in #82

Full Changelog: v1.0.0...scRNAseq

scRNA-seq Lessons from HCBC (first release)

Description
This repository has teaching materials for an Introduction to single-cell RNA-seq analysis workshop. This workshop will instruct participants on how to design a single-cell RNA-seq experiment, and how to efficiently manage and analyze the data starting from count matrices.

Learning Objectives

• Explain common considerations when designing a single-cell RNA-seq experiment
• Discuss the steps involved in taking raw single-cell RNA-sequencing data and generating a count (gene expression) matrix
• Compute and assess QC metrics at every step in the workflow
• Cluster cells based on expression data and derive the identity of the different cell types present
• Perform integration of different sample conditions