Overview
Syllabus
Intro
Outline
What to target?
Panel design
Panels vs. Exome
What do we mean by "coverage"?
Average vs. Percent Covered on NGS
What is an appropriate depth?
What's happening in regions with low depth?
Variant Detection using NGS • Allelic depth can be used to summarize the information supporting a call
Calling heterozygotes and identifying mosaicism
Uniformity and Quality
What is a Phred-scaled quality score?
Notes on confirmatory testing
Identifying copy number variants
Requests for raw data
Review: aligning to a genome
Review: statistics in variant calling
What type of file is required?
Summary
Taught by
Ambry Genetics