Next-Generation Sequencing Workshop Materials

On February 17, 2011, the Broad Institute hosted a workshop that offered an in-depth look at next-generation sequencing. Entitled “Discovery, genotyping, and analysis of SNPS, Indels, and CNVs,” the workshop featured case-based tutorials by Broad researchers. Slides from these presentations are now available for download.

Overview	Mark DePristo	PDF
Mapping, Alignment, SNP Calling	Heng Li	PDF
SNP Calling and Error Modeling	Ryan Poplin	PDF
Indel Calling Pipeline in the GATK	Guillermo del Angel	PDF
Read-Backed Haplotype Phasing	Menachem Fromer	PDF
Discovering and Genotyping Deletions Using GenomeSTRiP	Bob Handsaker	PDF
The Picard Pipelines	Tim Fennell	PDF
QPipeline: Variant Calling Pipeline for Custom-Target, Exome, and Deep Whole-Genomes	Kiran Garimella	PDF
GATK-Queue: Command-line Job Manager and Scripting Framework for Multi-Stage Genomic Analysis	Khalid Shakir	PDF
PLINK/Seq Analysis of Genetic Variation Data from Large-Scale, Population-Based Medical Sequencing Studies	Shaun Purcell	PDF