We are currently developing a PhylogatR companion book as well as educational modules for use in secondary and college level classes. Modules will support interactive analysis of PhylogatR data through R Shiny applications and include documentation for educators to facilitate classroom use and ensure specific learning objectives are met.
You can access a working draft of the PhylogatR book here.
Working drafts of our educational modules can be accessed below.
|Checking Your Data||Check genetic and geographic data downloaded from PhylogatR through visualization of: i) aligned DNA sequences for all loci present for a particular species in the database and ii) geographic coordinates for all individuals within that species.||Checking Your Data|
|Checking Your Data 2||Check genetic data downloaded from PhylogatR by screening for outliers using measures of genetic diversity.||Checking Your Data 2|
|Genetic Diversity||Evaluate the genetic diversity of data downloaded from PhylogatR by: i) looping through all sequence alignments in your PhylogatR download to calculate genetic diversity and sampling range size, and ii) running a regression analysis to ask the question: does the size of the geographic range of sampling predict levels of genetic diversity?||Genetic Diversity|
|Spatial Genetic Structure||Explore the spatial genetic structure of data downloaded from PhylogatR by: i) importing your genetic and geographic data, ii) visualizing sample density, and iii) exploring the genetic variation and how it is clustered.||Spatial Genetic Structure|
|Conservation||Linking genetic diveristy to IUCN status. This exercise asks the question: Is the IUCN red list designed to help protect species with low genetic diveristy that would put them at a higher risk of extinction? by seeing if genetic diveristy is correlated with conservation status. NOTE: This module is also available as an interactive web-based application (see below)||Conservation|
Working drafts of our web-based R shiny applications can be accessed below.
|Conservation||Linking genetic diveristy to IUCN status. This exercise asks the question: Is the IUCN red list designed to help protect species with low genetic diveristy that would put them at a higher risk of extinction? by seeing if genetic diveristy is correlated with conservation status.||Conservation|