Datammonkey: rapid detection of selective pressure on individual sites of codon alignments

Datammonkey: rapid detection of selective pressure on individual sites of codon alignments

February 8, 2005 | Sergei L. Kosakovsky Pond* and Simon D. W. Frost
Datamoney is a web-based platform that provides access to a suite of cutting-edge maximum likelihood-based tools for identifying sites under positive or negative selection. The platform, implemented using open-source components and running on a cluster of computers, offers three complementary methods: Single Likelihood Ancestor Counting (SLAC), Fixed Effects Likelihood (FEL), and Random Effects Likelihood (REL). These methods are designed to detect rapidly evolving and unusually conserved sites in protein-coding sequences, with SLAC being suitable for large alignments, FEL for intermediate-sized datasets, and REL for the most powerful but potentially less conservative results. Datamoney supports various data formats, BLAST searches, phylogenetic reconstruction, model selection, and visualization of selective pressure distributions. The platform aims to facilitate large-scale evolutionary analyses by providing fast and statistically robust tools, with plans to distribute a complete package for installation on other systems.Datamoney is a web-based platform that provides access to a suite of cutting-edge maximum likelihood-based tools for identifying sites under positive or negative selection. The platform, implemented using open-source components and running on a cluster of computers, offers three complementary methods: Single Likelihood Ancestor Counting (SLAC), Fixed Effects Likelihood (FEL), and Random Effects Likelihood (REL). These methods are designed to detect rapidly evolving and unusually conserved sites in protein-coding sequences, with SLAC being suitable for large alignments, FEL for intermediate-sized datasets, and REL for the most powerful but potentially less conservative results. Datamoney supports various data formats, BLAST searches, phylogenetic reconstruction, model selection, and visualization of selective pressure distributions. The platform aims to facilitate large-scale evolutionary analyses by providing fast and statistically robust tools, with plans to distribute a complete package for installation on other systems.
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