June 26 - July 8, 2017
Instructors: TBD
2016 materials: http://angus.readthedocs.io/en/2016/
This intensive two week summer course will introduce attendees with a strong biology background to the practice of analyzing high-throughput sequencing data (Illumina, PacBio, and Nanopore). The first week will introduce students to computational thinking and large-scale data analysis on UNIX platforms. The second week will focus on genome and transcriptome assembly, transcript quantitation, variant calling, and other topics.
No prior programming experience is required, although familiarity with some programming concepts is helpful, and bravery in the face of the unknown is necessary. 2 years or more of graduate school in a biological science is strongly suggested. Faculty, postdocs, and research staff are more than welcome, as are industry employees.
Our goal for these two weeks is to get students to the point where they are ready to begin analyzing their own data on a computer cluster, and can work with help forums and online tutorials to advance their own skills.
Students will gain practical experience in:
- Python and bash shell scripting
- Cloud computing/Amazon EC2
- Basic software installation on UNIX
- Installing and running Trinity, BWA, Salmon, SPAdes, ABySS, Prokka and other bioinformatics tools.
- Querying mappings and evaluating assemblies
- Materials from previous courses are available at http://angus.readthedocs.org/ under a Creative Commons/full use+reuse license.
You can read a blog post about the 2015 course here: http://ivory.idyll.org/blog/2015-small-batch.html
Applications will close March 17th.
The course fee will be $500 for this workshop. If you are staying in campus housing, room and board is approximately $500/wk additional (see venue information).
If you have questions, please contact us at via e-mail at dibsi.training@gmail.com.