ClockstaRX : Testing Molecular Clock Hypotheses With Genomic Data
© The Author(s) 2024. Published by Oxford University Press on behalf of Society for Molecular Biology and Evolution..
Phylogenomic data provide valuable opportunities for studying evolutionary rates and timescales. These analyses require theoretical and statistical tools based on molecular clocks. We present ClockstaRX, a flexible platform for exploring and testing evolutionary rate signals in phylogenomic data. Here, information about evolutionary rates in branches across gene trees is placed in Euclidean space, allowing data transformation, visualization, and hypothesis testing. ClockstaRX implements formal tests for identifying groups of loci and branches that make a large contribution to patterns of rate variation. This information can then be used to test for drivers of genomic evolutionary rates or to inform models for molecular dating. Drawing on the results of a simulation study, we recommend forms of data exploration and filtering that might be useful prior to molecular-clock analyses.
| Medienart: |
E-Artikel |
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| Erscheinungsjahr: |
2024 |
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| Erschienen: |
2024 |
| Enthalten in: |
Zur Gesamtaufnahme - volume:16 |
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| Enthalten in: |
Genome biology and evolution - 16(2024), 4 vom: 02. Apr. |
| Sprache: |
Englisch |
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| Beteiligte Personen: |
Duchêne, David A [VerfasserIn] |
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| Links: |
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| Themen: |
ClockstaR |
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| Anmerkungen: |
Date Completed 09.04.2024 Date Revised 10.04.2024 published: Print Citation Status MEDLINE |
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| doi: |
10.1093/gbe/evae064 |
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| funding: |
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| Förderinstitution / Projekttitel: |
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| 520 | |a Phylogenomic data provide valuable opportunities for studying evolutionary rates and timescales. These analyses require theoretical and statistical tools based on molecular clocks. We present ClockstaRX, a flexible platform for exploring and testing evolutionary rate signals in phylogenomic data. Here, information about evolutionary rates in branches across gene trees is placed in Euclidean space, allowing data transformation, visualization, and hypothesis testing. ClockstaRX implements formal tests for identifying groups of loci and branches that make a large contribution to patterns of rate variation. This information can then be used to test for drivers of genomic evolutionary rates or to inform models for molecular dating. Drawing on the results of a simulation study, we recommend forms of data exploration and filtering that might be useful prior to molecular-clock analyses | ||
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| 700 | 1 | |a Stiller, Josefin |e verfasserin |4 aut | |
| 700 | 1 | |a Heller, Rasmus |e verfasserin |4 aut | |
| 700 | 1 | |a Ho, Simon Y W |e verfasserin |4 aut | |
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