...
Name | Initials | Affiliation | Expertise |
|---|---|---|---|
SPHS | Director GSAF | Everything, if loosely defined (but especially | |
JB | Molecular Biosciences | Microbes, Perl, C++, Mac, breseq, Miscellanea | |
Dan Deatherage | DD | Barrick Lab | Unix, Python, NGS Library Prep, Capture, Rare variants |
...
- Presentation: Alternative Library Preparation Methods
- Presentation: Experimental design
- Tutorial: SSCS Read Generation
- Tutorial: Breseq identification of rare variants within targeted regions
- Discussion: Full results of SSCS sequencing, and use of autocorrelation
Resources
- NGS Course Resources Tool List
- GSAF adaptor and barcode sequence resource
- Working on TACC from your Mac or PC
- Scott's list of linux one-liners
- Installing Virtual machine & Linux on Windows
- Example BWA alignment script
- Variant calling with GATK (SPHS)
- Visualize mapped data at UCSC genome browser (AB)
- Genome variation in mixed samples (FreeBayes, deepSNV) (JB)
- SRA toolkit and Exercises (AB)
- Shell Scripting (SPHS/AB)
- Installing Linux tools (JB)
- Custom Genome Databases
- Evaluating & Visualizing assemblies (bacterial, SPHS)
- Genome Assembly Examples (SPHS)
- Tutorial: Genome Assembly (velvet) (SPHS)
- Visualize mapped data at UCSC genome browser (AB)
- ddRAD (Stacks tutorial: http://evomics.org/wp-content/uploads/2013/03/cesky_2014_RAD_tutorial_updated.pdf) , Tn-Seq?