STAMPS course at MBL

A few weeks ago I attended a course entitled “Strategies and Techniques for Analyzing Microbial Population Structure” at the Marine Biological Laboratory in Woods Hole, along with a number of other students, postdocs and faculty engaged in the study of the microbiology of the built environment (as well as the oceans, humans, animals, plants). This excellent …

Course Materials: Human Health and the Design of the Urban Microbiome

This last winter, Gwynne Mhuireach at the University of Oregon taught a really interesting course entitled “Human Health and the Design of the Urban Microbiome”.  She posted a description of the final “design charrette” here on microBEnet awhile back.  I just asked her if she’d be willing to share her course materials for others interested …

CMB Summer Course on Microbial Ecology @ SIMS

CMB Summer Course on Microbial Ecology @ SIM 20th — 25th November, 2016 at The Sydney Institute of Marine Science (SIMS) Sydney, Australia This course provides an intensive training for scientists interested in the ecology of microorganisms within a range of environments, offering students practical hands-on experience in: Experimental/ sample design and statistical analysis Training …

Swabs to Genomes: Week 10 (Review paper, debrief, cost analysis)

Week 10 was the last week of class (that’s a quarter system for all semester-types out there).  In the previous class the students got together in groups and produced “consensus” genome announcements for their groups.   In the intervening week, Ashley and I produced a “consensus consensus” Genome Announcement, taking pieces from the various groups.    Then …

Swabs to Genomes: Week 7 (Validate Assemblies, Upload to RAST)

(this blog post was written by group #3 as a writing assignment) Last week in class we were introduced to genome assembly and validation by using an open-source bacterial genome assembly program A5-miseq. This program produces high quality genome assemblies by automating processes such data processing, error correction, contig and scaffold assembly, and final verification. …