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 |
Documentation:
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