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: 0.2.2
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: 2021-04-06
Author: Alka Benawra
Maintainer: Alka Benawra <alkabenawra at>
License: GPL-3
NeedsCompilation: no
Materials: README
CRAN checks: MDMAPR results


Reference manual: MDMAPR.pdf
Package source: MDMAPR_0.2.2.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): MDMAPR_0.2.2.tgz, r-release (x86_64): MDMAPR_0.2.2.tgz, r-oldrel: MDMAPR_0.2.2.tgz
Old sources: MDMAPR archive


Please use the canonical form to link to this page.