Monday notes

From Twitter, Joe Felsenstein’s pictures of population geneticists 1960-70
GNU Parallel + BAS cluster = AWESOME. A BLAST job that previuosly required
- splitting FASTA file into 18 parts
- creating PBS to run BLAST for each part
- combining results

is now completed with a single script in 3 hrs 15 min using 407 GB RAM!

- tradeoff between time and memory

Biology seminar
Prediction symposium
Reading up on random effects ASTER models

Reading

Saunders, D., Yoshida, K., Sambles, C., Glover, R., Clavijo, B., Corpas, M., Bunting, D., Dong, S., Clark, M., Swarbreck, D., Ayling, S., Bashton, M., Collin, S., Hosoya, T., Edwards, A., Crossman, L., Etherington, G., Win, J., Cano, L., Studholme, D., Downie, J.A., Caccamo, M., Kamoun, S. & MacLean, D. (2014). Crowdsourced analysis of ash and ash dieback through the Open Ash Dieback project: A year 1 report on datasets and analyses contributed by a self-organising community. bioRxiv. Retrieved April 28, 2014, from http://biorxiv.org/content/early/2014/04/25/004564

Turner, T., Giauque, C.C., Schrider, D.R. & Kern, A.D. (2014). Genome-wide association of foraging behavior in Drosophila melanogaster fails to support large-effect alleles at the foraging gene. bioRxiv. Retrieved April 28, 2014, from http://biorxiv.org/content/early/2014/04/20/004325

Rohlfs, R. & Nielsen, R. (2014). Identifying adaptive and plastic gene expression levels using a unified model for expression variance between and within species. bioRxiv. Retrieved April 28, 2014, from http://www.biorxiv.org/content/early/2014/04/20/004374