Category Archives: genomics

Want to share your code?

Posted on 27 Aug, 2013 by kimgilbert

In this line of work, we have all encountered tasks that are tedious, time consuming, and repetitive.  (Or if not, maybe give it a bit more time.) When confronted with these situations, people tend to fall into one of two … Continue reading →

Posted in bioinformatics, community, genomics, howto, methods, next generation sequencing, phylogenetics, population genetics, quantitative genetics, R, software, theory | 14 Comments

How to Backup and Store your Next-Generation Sequencing (NGS) data

Posted on 6 Aug, 2013 by Mark Christie

Congratulations!  You have recently received a file path to retrieve your hard-earned next-generation sequencing data.  You quickly transfer the files to the computing cluster you work on or perhaps, if you only have a few lanes of data, to your … Continue reading →

Posted in bioinformatics, data archiving, genomics, howto | 1 Comment

Q&A: Julian Catchen helps us dig into STACKS – Part II

Posted on 11 Apr, 2013 by Mark Christie

As promised, below is part II of our interview with Julian Catchen. These questions focus more on the specifics of using stacks (i.e., user-related questions). Please see the first post if you are interested a general overview. Even more information, … Continue reading →

Posted in bioinformatics, genomics, howto, interview, methods | Tagged | Leave a comment

Q&A: Julian Catchen helps us dig into STACKS

Posted on 9 Apr, 2013 by Mark Christie

Julian Catchen is a post-doctoral researcher at the University of Oregon, where he uses computational solutions to facilitate the analysis of next-generation sequencing data. Prior to obtaining his PhD, Julian worked for both Intel and IBM, experiences that no doubt … Continue reading →

Posted in bioinformatics, genomics, howto, interview, methods | Tagged | 2 Comments

Phylogeny-aware comparisons of microbial communities – EdgePCA and Squash Clustering

Posted on 25 Mar, 2013 by hollybik

I’m jumping on the bandwagon with a blog post about this new PLoS ONE paper (taking the lead from the man in charge in my lab) because the algorithms are just so exciting: Matsen FA IV, Evans SN. (2013) Edge Principal … Continue reading →

Posted in bioinformatics, genomics, next generation sequencing, software | Tagged , , , , , , , | 1 Comment