MDMAPR: Molecular Detection Mapping and Analysis Platform
Runs a Shiny web application that merges raw 'qPCR' fluorescence data with related metadata to visualize species presence/absence detection patterns and assess data quality. The application calculates threshold values from raw fluorescence data using a method based on the second derivative method, Luu-The et al (2005) <doi:10.2144/05382RR05>, and utilizes the ‘chipPCR’ package by Rödiger, Burdukiewicz, & Schierack (2015) <doi:10.1093/bioinformatics/btv205> to calculate Cq values. The application has the ability to connect to a custom developed MySQL database to populate the applications interface. The application allows users to interact with visualizations such as a dynamic map, amplification curves and standard curves, that allow for zooming and/or filtering. It also enables the generation of customized exportable reports based on filtered mapping data.
| Version: | 0.2.3 |
| Imports: | RMySQL,shinydashboard,DBI,DT,leaflet,leaflet.extras,shinyjs,ggplot2,dplyr,readxl,plotly,reactable,writexl,xfun,berryFunctions,shinyWidgets,shiny,htmltools, methods, utils, stats,bslib,htmlwidgets |
| Published: | 2021-06-23 |
| DOI: | 10.32614/CRAN.package.MDMAPR |
| Author: | Alka Benawra |
| Maintainer: | Alka Benawra <alkabenawra at rogers.com> |
| BugReports: | https://github.com/HannerLab/MDMAPR/issues |
| License: | GPL-3 |
| URL: | https://github.com/HannerLab/MDMAPR |
| NeedsCompilation: | no |
| Materials: | README |
| CRAN checks: | MDMAPR results |
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