phylosamp
Sample Size Calculations for Molecular and Phylogenetic Studies
Implements novel tools for estimating sample sizes needed for phylogenetic studies, including studies focused on estimating the probability of true pathogen transmission between two cases given phylogenetic linkage and studies focused on tracking pathogen variants at a population level. Methods described in Wohl, Giles, and Lessler (2021) and in Wohl, Lee, DiPrete, and Lessler (2023).
- Version1.0.1
- R versionunknown
- LicenseGPL-2
- Needs compilation?No
- phylosamp citation info
- Last release05/23/2023
Documentation
- VignetteEstimating the linkage false discovery rate from sample size
- VignetteEstimating sample size for transmission linkage from the false discovery rate
- VignetteEstimating the sensitivity and specificity of a linkage criteria
- VignetteIllustrative examples for evaluating transmission linkage
- VignetteEstimating bias in observed variant prevalence
- VignetteEstimating the sample size needed for variant monitoring (cross-sectional sampling)
- VignetteEstimating the probability of detecting a variant (cross-sectional sampling)
- VignetteEstimating the sample size needed for variant monitoring (periodic sampling)
- VignetteEstimating the probability of detecting a variant (periodic sampling)
- VignetteVariant surveillance example
- MaterialREADME
- MaterialNEWS
Team
Justin Lessler
Lucy D'Agostino McGowan
Show author detailsRolesAuthor, ContributorShirlee Wohl
Show author detailsRolesAuthor, ContributorElizabeth C Lee
Show author detailsRolesAuthor, ContributorJohn R Giles
Show author detailsRolesAuthor, Contributor
Insights
Last 30 days
This package has been downloaded 155 times in the last 30 days. Now we're getting somewhere! Enough downloads to populate a lively group chat. The following heatmap shows the distribution of downloads per day. Yesterday, it was downloaded 2 times.
The following line graph shows the downloads per day. You can hover over the graph to see the exact number of downloads per day.
Last 365 days
This package has been downloaded 2,635 times in the last 365 days. Consider this 'mid-tier influencer' status—if it were a TikTok, it would get a nod from nieces and nephews. The day with the most downloads was Sep 11, 2024 with 30 downloads.
The following line graph shows the downloads per day. You can hover over the graph to see the exact number of downloads per day.
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Dependencies
- Imports3 packages
- Suggests8 packages