nymphaea

<p>Example input file of Nymphaea ISSR data, taken from Reid et. al. (2021).
This dataset has already been consolidated, and can be used
as input for the generation of an nMDS plot. The paper can be found here: &lt;https://www.sciencedirect.com/science/article/pii/S0304377021000218&gt;</p>

datasets

A molecular genetics tool that processes binary data from fragment analysis. It consolidates replicate sample pairs, outputs summary statistics, and produces hierarchical clustering trees and nMDS plots. This package was developed from the publication available here: <https://www.sciencedirect.com/science/article/pii/S1049964420306538>. The GUI version of this package is available on the R Shiny online server at: <https://clarkevansteenderen.shinyapps.io/BINMAT/> or it is accessible via GitHub by typing: shiny::runGitHub("BinMat", "clarkevansteenderen") into the console in R. Two real-world datasets accompany the package: an AFLP dataset of Bunias orientalis samples from Tewes et. al. (2017) <https://besjournals.onlinelibrary.wiley.com/doi/full/10.1111/1365-2745.12869>, and an ISSR dataset of Nymphaea specimens from Reid et. al. (2021) <https://www.sciencedirect.com/science/article/pii/S0304377021000218> . The authors of these publications are thanked for allowing the use of their data.

Clarke van Steenderen

BinMat

Processes Binary Data Obtained from Fragment Analysis (Such as
AFLPs, ISSRs, and RFLPs)

nymphaea function

<p>A dataframe with columns for loci, and rows of replicate pairs. Grouping information is in the second column</p>

Format

Example input file of Nymphaea ISSR data, taken from Reid et. al. (2021).
This dataset has already been consolidated, and can be used
as input for the generation of an nMDS plot. The paper can be found here: &lt;https://www.sciencedirect.com/science/article/pii/S0304377021000218&gt; — nymphaea

Example input file of Nymphaea ISSR data, taken from Reid et. al. (2021).
This dataset has already been consolidated, and can be used
as input for the generation of an nMDS plot. The paper can be found here: &lt;https://www.sciencedirect.com/science/article/pii/S0304377021000218&gt;

nymphaea: Example input file of Nymphaea ISSR data, taken from Reid et. al. (2021). This dataset has already been consolidated, and can be used as input for the generation of an nMDS plot. The paper can be found here: <https://www.sciencedirect.com/science/article/pii/S0304377021000218>

Description

Usage

Arguments

Format