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wpm

This is the development version of wpm; for the stable release version, see wpm.

Well Plate Maker


Bioconductor version: Development (3.19)

The Well-Plate Maker (WPM) is a shiny application deployed as an R package. Functions for a command-line/script use are also available. The WPM allows users to generate well plate maps to carry out their experiments while improving the handling of batch effects. In particular, it helps controlling the "plate effect" thanks to its ability to randomize samples over multiple well plates. The algorithm for placing the samples is inspired by the backtracking algorithm: the samples are placed at random while respecting specific spatial constraints.

Author: Helene Borges [aut, cre], Thomas Burger [aut]

Maintainer: Helene Borges <borges.helene.sophie at gmail.com>

Citation (from within R, enter citation("wpm")):

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("wpm")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("wpm")
How to use Well Plate Maker HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews BatchEffect, ExperimentalDesign, GUI, MassSpectrometry, Proteomics, Software
Version 1.13.0
In Bioconductor since BioC 3.12 (R-4.0) (3.5 years)
License Artistic-2.0
Depends R (>= 4.1.0)
Imports utils, methods, cli, Biobase, SummarizedExperiment, config, golem, shiny, DT, ggplot2, dplyr, rlang, stringr, shinydashboard, shinyWidgets, shinycustomloader, RColorBrewer, logging
System Requirements
URL https://github.com/HelBor/wpm https://bioconductor.org/packages/release/bioc/html/wpm.html
Bug Reports https://github.com/HelBor/wpm/issues
See More
Suggests MSnbase, testthat, BiocStyle, knitr, rmarkdown
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package wpm_1.13.0.tar.gz
Windows Binary wpm_1.13.0.zip
macOS Binary (x86_64) wpm_1.13.0.tgz
macOS Binary (arm64) wpm_1.13.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/wpm
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/wpm
Bioc Package Browser https://code.bioconductor.org/browse/wpm/
Package Short Url https://bioconductor.org/packages/wpm/
Package Downloads Report Download Stats