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The khmer software package: enabling efficient nucleotide sequence analysis.
Crusoe MR, Alameldin HF, Awad S, Boucher E, Caldwell A, Cartwright R, Charbonneau A, Constantinides B, Edvenson G, Fay S, Fenton J, Fenzl T, Fish J, Garcia-Gutierrez L, Garland P, Gluck J, González I, Guermond S, Guo J, Gupta A, Herr JR, Howe A, Hyer A, Härpfer A, Irber L, Kidd R, Lin D, Lippi J, Mansour T, McA'Nulty P, McDonald E, Mizzi J, Murray KD, Nahum JR, Nanlohy K, Nederbragt AJ, Ortiz-Zuazaga H, Ory J, Pell J, Pepe-Ranney C, Russ ZN, Schwarz E, Scott C, Seaman J, Sievert S, Simpson J, Skennerton CT, Spencer J, Srinivasan R, Standage D, Stapleton JA, Steinman SR, Stein J, Taylor B, Trimble W, Wiencko HL, Wright M, Wyss B, Zhang Q, Zyme E, Brown CT. Crusoe MR, et al. F1000Res. 2015 Sep 25;4:900. doi: 10.12688/f1000research.6924.1. eCollection 2015. F1000Res. 2015. PMID: 26535114 Free PMC article.
Phylogeny and phylogeography of functional genes shared among seven terrestrial subsurface metagenomes reveal N-cycling and microbial evolutionary relationships.
Lau MC, Cameron C, Magnabosco C, Brown CT, Schilkey F, Grim S, Hendrickson S, Pullin M, Sherwood Lollar B, van Heerden E, Kieft TL, Onstott TC. Lau MC, et al. Front Microbiol. 2014 Oct 31;5:531. doi: 10.3389/fmicb.2014.00531. eCollection 2014. Front Microbiol. 2014. PMID: 25400621 Free PMC article.
Best practices for scientific computing.
Wilson G, Aruliah DA, Brown CT, Chue Hong NP, Davis M, Guy RT, Haddock SH, Huff KD, Mitchell IM, Plumbley MD, Waugh B, White EP, Wilson P. Wilson G, et al. PLoS Biol. 2014 Jan;12(1):e1001745. doi: 10.1371/journal.pbio.1001745. Epub 2014 Jan 7. PLoS Biol. 2014. PMID: 24415924 Free PMC article.