Inproceedings: An article in a conference proceedings.
SlimCodeML: An Optimized Version of CodeML for the Branch-Site Model
Title of the conference
HiCOMB (11th IEEE International Workshop on High Performance Computational Biology)
Aluru S., Bader D.A.
CodeML (part of the PAML package) im- plements a maximum likelihood-based approach to de- tect positive selection on a specific branch of a given phylogenetic tree. While CodeML is widely used, it is very compute-intensive. We present SlimCodeML, an optimized version of CodeML for the branch-site model. Our performance analysis shows that SlimCodeML substantially outperforms CodeML (up to 9.38 times faster), especially for large-scale genomic analyses.
computing, molecular evolution, phylogenetics, codon models, likelihood computation
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