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Welcome to the VISG-course-2012 wiki!

Using github

• Setting up github
• Cloning the visg-course-2012 repository

Configuration and code fixes

15:30 -17:15 CNV estimation from large data sets (Hoang Tan Nguyen, Mik Black and Tony Merriman)

• cnvRcode.R (Corrected Rsamtools commands)

9:00 – 12:30 Bayesian QTL mapping in diploids and polyploids with BayesQTLBIC (Gail Timmerman-Vaughan, Rod Ball, Phillip Wilcox)

• Peeling configuration (prerequisite unix commands to create the peeling executible)

Workflows

Quality control of NGS data

• Quality control workflow

SAMtools

• SAMtools workflow
• Rsamtools workflow