Title: Genome Variant Analysis Course 2015  
Owner: Deatherage, Daniel E
Creator: Deatherage, Daniel E May 20, 2015
Last Changed by: Deatherage, Daniel E May 29, 2015
Tiny Link: (useful for email) https://cloud.wikis.utexas.edu/wiki/x/h1bYAg
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Bioinformatics Team (BioITeam) at the University of Texas (2)
    Page: Linux and Lonestar refresher
    Page: Mapping with bowtie2 Tutorial
Hierarchy
Children (13)
    Page: Annovar Annotations
    Page: Breseq Tutorial
    Page: Day 3 introduction
    Page: Exome Capture Metrics
    Page: Genome Analysis ToolKit (GATK)
    Page: Human Trios
    Page: IGV Tutorial
    Page: Linux and Lonestar refresher
    Page: Mapping with bowtie2 Tutorial
    Page: Molecular Index Error correction
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Time Editor  
May 29, 2015 00:11 Deatherage, Daniel E View Changes
May 29, 2015 00:09 Deatherage, Daniel E View Changes
May 28, 2015 23:16 Deatherage, Daniel E View Changes
May 28, 2015 21:08 Deatherage, Daniel E View Changes
May 28, 2015 20:58 Deatherage, Daniel E  
Outgoing Links
External Links (7)
    evomics.org/wp-content/uploads/2013/03/cesky_2014_RAD_tutor…
    https://utexas.atlassian.net/wiki/display/GSAF/Illumina+-+a…
    https://www.utexas.edu/maps/main/buildings/mez.html
    https://www.youtube.com/watch?t=56&v=HMyCqWhwB8E
    barricklab.org/
    https://www.tacc.utexas.edu/
    https://utexas.atlassian.net/wiki/display/GSAF/About+Us#Sco…
Bioinformatics Team (BioITeam) at the University of Texas (38)     Page: Linux and Lonestar refresher
    Page: Shell Script
    Page: Installing Virtual machine & Linux on Windows
    Page: Genome Assembly
    Page: Installing Linux tools
    Page: Annovar Annotations
    Page: SNV_Tutorial fix
    Page: Genome Variant Analysis Course 2015
    Page: Genome Variant Analysis Course 2014
    Page: Example BWA alignment script
    Page: IGV Tutorial
    Page: Identification of Variants in Mixed Population Sequencing (GVA14)
    Page: Human Trios
    Page: Exome Capture Metrics
    Page: Scott's list of linux one-liners
    Page: Breseq Tutorial
    Page: Mapped read data evaluation (samstat, SAMtools) (GVA14)
    Page: Variant calling with GATK
    Page: Editing files
    Page: Mapping with bowtie2 Tutorial
    Page: Genome Assembly (velvet)
    Page: Custom Genome Databases
    Page: Genome Analysis ToolKit (GATK)
    Page: NGS Course Resources
    Page: Samtools mpileup (GVA14)
    Page: Molecular Index Error correction
    Page: Single Nucleotide Variant (SNV) calling Tutorial
    Page: Exercises
    Page: Day 3 introduction
    Page: SRA toolkit
    Page: Genome variation in mixed samples (FreeBayes, deepSNV)
    Page: Evaluating and processing raw sequencing data (GVA14)
    Page: Tumor/normal analysis with Virmid (GVA14)
    Page: SV calling with SVdetect
    Page: Visualize mapped data at UCSC genome browser
    Page: Filtering and Screening Variants (GVA14)
    Page: Evaluating & Visualizing assemblies
    Page: SSC Intro to NGS Bioinformatics Course