Was informed of this by Titus Brown, one of the instructors. Info copied from here.
Microbial genomics and transcriptomics hands-on, Sep 24-25
Who: Ben Johnson (Michigan State University); Tracy Teal (Data Carpentry); C. Titus Brown (UC Davis).
Host: C. Titus Brown
When: Sep 24 and 25, 2015
Times: 9am-3pm on both days
Where: TBD (UC Davis campus).
Cost: there is no fee.
This workshop is open to everyone, including graduate students, postdocs, staff, faculty, and community members. We have extra space for UC Davis VetMed affiliates; contact the host if you are an SVM affiliate.
Description
This two-day hands-on workshop will introduce biologists to microbial genomics and transcriptomics. The primary focus will be on genome assembly and annotation, and subsequent transcriptome analysis, of bacteria.
We will be analyzing a stock data set, and we will be using the Amazon cloud.
Topics overview
- Logging into the Amazon Cloud
- Short read quality and trimming
- Genome assembly (with SPAdes or MEGAHIT)
- Genome annotation (with Prokka)
- RNAseq analysis
- Differential expression analysis
Computer requirements¶
Attendees will need to bring a computer with a Web browser, an Internet connection, and an ssh client; Windows users should install MobaXterm before the workshop.
LICENSE: This documentation and all textual/graphic site content is licensed under the Creative Commons – 0 License (CC0) — fork @ github. Presentations (PPT/PDF) and PDFs are the property of their respective owners and are under the terms indicated within the presentation.
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