wpm

Well Plate Maker

Bioconductor version: Release (3.20)

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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	BatchEffect, ExperimentalDesign, GUI, MassSpectrometry, Proteomics, Software
Version	1.16.0
In Bioconductor since	BioC 3.12 (R-4.0) (4 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

Suggests	MSnbase, testthat, BiocStyle, knitr, rmarkdown
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	wpm_1.16.0.tar.gz
Windows Binary (x86_64)	wpm_1.16.0.zip
macOS Binary (x86_64)	wpm_1.16.0.tgz
macOS Binary (arm64)	wpm_1.16.0.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