AI Article Synopsis
- Molecular sequence data from rapidly evolving organisms can be sampled at different times, which helps in calibrating molecular clocks using root-to-tip (RTT) regression.
- Clockor2 is a new web application designed for efficient RTT regression, allowing users to quickly fit both local and global molecular clocks, even with complex genomic datasets.
- The application processes data on the client-side for enhanced speed and privacy, handling large datasets with trees of up to 10,000 tips, and is available for free online.
Article Abstract
Molecular sequence data from rapidly evolving organisms are often sampled at different points in time. Sampling times can then be used for molecular clock calibration. The root-to-tip (RTT) regression is an essential tool to assess the degree to which the data behave in a clock-like fashion. Here, we introduce Clockor2, a client-side web application for conducting RTT regression. Clockor2 allows users to quickly fit local and global molecular clocks, thus handling the increasing complexity of genomic datasets that sample beyond the assumption of homogeneous host populations. Clockor2 is efficient, handling trees of up to the order of 104 tips, with significant speed increases compared with other RTT regression applications. Although clockor2 is written as a web application, all data processing happens on the client-side, meaning that data never leave the user's computer. Clockor2 is freely available at https://clockor2.github.io/.
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| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC11377183 | PMC |
| http://dx.doi.org/10.1093/sysbio/syae003 | DOI Listing |
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