wpm

DOI: 10.18129/B9.bioc.wpm  

Well Plate Maker

Bioconductor version: Release (3.16)

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>

Installation

To install this package, start R (version "4.2") and enter:

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

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")

 

HTML	R Script	How to use Well Plate Maker
PDF		Reference Manual
Text		NEWS

Details

biocViews	BatchEffect, ExperimentalDesign, GUI, MassSpectrometry, Proteomics, Software
Version	1.8.0
In Bioconductor since	BioC 3.12 (R-4.0) (2.5 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
LinkingTo
Suggests	MSnbase, testthat, BiocStyle, knitr, rmarkdown
SystemRequirements
Enhances
URL	https://github.com/HelBor/wpm https://bioconductor.org/packages/release/bioc/html/wpm.html
BugReports	https://github.com/HelBor/wpm/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	wpm_1.8.0.tar.gz
Windows Binary	wpm_1.8.0.zip
macOS Binary (x86_64)	wpm_1.8.0.tgz
macOS Binary (arm64)	wpm_1.8.0.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