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Welcome to the VISG-course-2012 wiki!

Using github

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

BWA documentation

• http://bio-bwa.sourceforge.net/
• bwa manual pages

Workflows

Quality control of NGS data

• Quality control workflow

SAMtools

• SAMtools workflow
• Rsamtools workflow

CNV

• cnvRcode.R (Corrected Rsamtools commands)

Configuring peeling

*Peeling configuration