Tyler Chafin

5 Questions 78 Answers 0 Followers

Questions related from Tyler Chafin

How to pick most common topologies from bootstrap trees or posterior distribution?

Anyone know of a program or R package which I could use to quickly tally up the most common topologies from a series of bootstrap pseudorep trees, or from trees sampled from a posterior...

03 March 2016 8,778 3 View

Large insert NGS library with low input DNA?

I am working on a de novo assembly for an organism with a fairly small genome (~200 Mb), and for which we have already generated paired end (2x100) Illumina reads which assembled gives an N50...

01 January 2016 7,598 5 View

What criteria do you use for determining co-authorship and author order in Biological Sciences?

As a early-career PhD student, this is an issue I am currently thinking about as I am preparing (my first ever) two manuscripts. What criteria do you use when determining co-authorship, and author...

12 December 2015 6,320 6 View

How can I determine optimum identity threshold when clustering reads to build RAD loci de novo?

Our lab uses ddRAD (a variant from the family of RAD-seq methods) for simultaneous SNP detection and genotyping. To find homologous loci across multiple individuals, we first cluster reads within...

12 December 2015 2,152 3 View

How to homogenize fish fin clips for stable isotope analysis?

I am preparing to do a small preliminary study of niche delimitation in a group of fishes, using in part stable isotope analysis. I am completely new to stable isotope analysis, and so I apologize...

12 December 2015 8,054 5 View