SlimCodeML: An Optimized Version of CodeML for the Branch-Site Model
| Data(s) |
2012
|
|---|---|
| Resumo |
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. |
| Identificador |
http://serval.unil.ch/?id=serval:BIB_5F7B13551FF8 isbn:978-0-7695-4676-6/12 doi:10.1109/IPDPSW.2012.88 http://my.unil.ch/serval/document/BIB_5F7B13551FF8.pdf http://nbn-resolving.org/urn/resolver.pl?urn=urn:nbn:ch:serval-BIB_5F7B13551FF83 |
| Idioma(s) |
en |
| Publicador |
IEEE |
| Direitos |
info:eu-repo/semantics/openAccess |
| Fonte |
HiCOMB (11th IEEE International Workshop on High Performance Computational Biology) |
| Palavras-Chave | #computing; molecular evolution; phylogenetics; codon models; likelihood computation |
| Tipo |
info:eu-repo/semantics/conferenceObject inproceedings |
