My collaborator, Marina LaForgia, and I are gearing up to start processing some plant rhizosphere samples for metagenomic sequencing. We collected more samples than we can afford to process (as is life) and are starting to make the hard decisions about which samples to move forward with. This brought us to the topic of whether …
I spent this past summer at the MBL Microbial Diversity course which Jonathan recently posted about. I had heard about the course from a variety of different people and it had been described to me as “life changing” so many times that I knew I had to attend. Between the wonderful staff and the plethora …
I wrote a post on the Seagrass Microbiome website yesterday about my struggles with fungal ITS sequencing data which I thought I’d share here as well in case anyone is looking to jump into the fungal fray. To summarize: changing the default method of the QIIME assign_taxonomy.py script from “UCLUST” to “blast” dramatically increased the …
I recently had the opportunity to attend the Explorations in Data Analyses for Metagenomic Advances in Microbial Ecology (EDAMAME) Workshop held at the Kellogg Biological Station in Michigan by Ashley Shade, Tracy Teal and Josh Herr. I wrote a post on the Seagrass Microbiome website about what I found to be my favorite and/or most …