Gabriella Coleman asked me for a short, general introduction to open science for a class, and I couldn't find anything that fit her needs. So I wrote up my own perspective. Feedback welcome!
read moreThere are comments.
A shotgun metagenome workshop at the Scripps Institute of Oceanography
We just finished teaching a two day workshop at the Scripps Institute of Oceanography down at UC San Diego. Dr. Harriet Alexander, a postdoc in my lab, and I spent two days going through cloud computing, short read quality and k-mer trimming, metagenome assembly, quantification of gene abundance, mapping of …
read moreThere are comments.
Publishing Open Source Research Software in JOSS - an experience report
Our first JOSS submission (paper? package?) is about to be accepted and I wanted to enthuse about the process a bit.
JOSS, the Journal of Open Source Software, is a place to publish your research software packages. Quoting from the about page,
The Journal of Open Source Software (JOSS) is …
read moreThere are comments.
Lessons on doing science from my father, Gerry Brown
(This is an invited chapter for a memorial book about my father. You can also read my remembrances from the day after he passed away.)
Dr. Gerald E. Brown was a well known nuclear physicist and astrophysicist who worked at Stony Brook University from 1968 until his death in 2013 …
read moreThere are comments.
What I did on my summer vacation: Microbial Diversity 2016
I just left Woods Hole, MA, where I spent the last 6 and a half weeks taking the Microbial Diversity course as a student. It was fun, exhausting, stimulating, and life changing!
The course had three components: a lecture series, in which world-class microbiologists gave 2-3 hrs of talks each …
read moreThere are comments.
Increasing postdoc pay
MinHash signatures as ways to find samples, and collaborators?
As I wrote last week my latest enthusiasm is MinHash sketches, applied (for the moment) to RNAseq data sets. Briefly, these are small "signatures" of data sets that can be used to compare data sets quickly. In the previous blog post, I talked a bit about their effectiveness and showed …
read moreThere are comments.