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Aligning short reads to reference alignments and trees.
Berger SA, Stamatakis A. Berger SA, et al. Among authors: stamatakis a. Bioinformatics. 2011 Aug 1;27(15):2068-75. doi: 10.1093/bioinformatics/btr320. Epub 2011 Jun 2. Bioinformatics. 2011. PMID: 21636595
RAxML-Light: a tool for computing terabyte phylogenies.
Stamatakis A, Aberer AJ, Goll C, Smith SA, Berger SA, Izquierdo-Carrasco F. Stamatakis A, et al. Bioinformatics. 2012 Aug 1;28(15):2064-6. doi: 10.1093/bioinformatics/bts309. Epub 2012 May 24. Bioinformatics. 2012. PMID: 22628519 Free PMC article.
To demonstrate scalability and robustness of the code, we inferred a phylogeny on a simulated DNA alignment (1481 taxa, 20 000 000 bp) using 672 cores. This dataset requires one terabyte of RAM to compute the likelihood score on a single tree. CODE AVAILABILI …
To demonstrate scalability and robustness of the code, we inferred a phylogeny on a simulated DNA alignment (1481 taxa, 20 000 …
222 results