Package: wilson 2.4.4

Hendrik Schultheis

wilson: Web-Based Interactive Omics Visualization

Tool-set of modules for creating web-based applications that use plot based strategies to visualize and analyze multi-omics data. This package utilizes the 'shiny' and 'plotly' frameworks to provide a user friendly dashboard for interactive plotting.

Authors:Hendrik Schultheis [aut, cre], Jens Preussner [aut], Looso Mario [aut]

wilson_2.4.4.tar.gz
wilson_2.4.4.zip(r-4.7-any)wilson_2.4.4.zip(r-4.6-any)wilson_2.4.4.zip(r-4.5-any)
wilson_2.4.4.tgz(r-4.6-any)wilson_2.4.4.tgz(r-4.5-any)
wilson_2.4.4.tar.gz(r-4.7-any)wilson_2.4.4.tar.gz(r-4.6-any)
wilson_2.4.4.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
wilson/json (API)

# Install 'wilson' in R:

install.packages('wilson', repos = c('https://loosolab.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/loosolab/wilson/issues

On CRAN:

4.78 score 2 stars 8 scripts 739 downloads 1 mentions 41 exports 202 dependencies

Last updated from:9a42aa7b85. Checks:9 OK. Indexed: yes.

Target	Result	Time
linux-devel	OK	233
source / vignettes	OK	394
linux-release	OK	183
macos-release	OK	155
macos-oldrel	OK	256
windows-devel	OK	132
windows-release	OK	134
windows-oldrel	OK	128
wasm-release	OK	192

Exports:and andUI Clarion colorPicker colorPickerUI columnSelector columnSelectorUI create_geneview create_heatmap create_logger create_pca create_scatterplot featureSelector featureSelectorUI geneView geneViewUI global_cor_heatmap global_cor_heatmapUI heatmap heatmapUI install_app label labelUI limit limitUI marker markerUI orNumeric orNumericUI orTextual orTextualUI parse_MaxQuant parser pca pcaUI scatterPlot scatterPlotUI set_logger tobias_parser transformation transformationUI

Dependencies:abind askpass assertthat backports base64enc BH Biobase BiocGenerics BiocParallel bitops boot broom bslib ca cachem callr car carData caTools circlize cli clue cluster codetools colorspace colourpicker commonmark ComplexHeatmap corrplot cowplot cpp11 crayon crosstalk curl data.table DelayedArray dendextend Deriv DESeq2 digest doBy doParallel dplyr DT egg ellipse emmeans estimability evaluate factoextra FactoMineR farver fastmap flashClust fontawesome foreach forecast formatR Formula fracdiff fs futile.logger futile.options gclus generics GenomicRanges GetoptLong ggplot2 ggpubr ggrepel ggsci ggsignif GlobalOptions glue gplots gridExtra gtable gtools heatmaply highr htmltools htmlwidgets httpuv httr IRanges irlba isoband iterators jquerylib jsonlite KernSmooth knitr labeling lambda.r later lattice lazyeval leaps lgr lifecycle lme4 lmtest locfit magrittr MASS Matrix MatrixGenerics MatrixModels matrixStats memoise mgcv mime miniUI minqa modelr multcompView mvtnorm nlme nloptr nnet numDeriv openssl otel pbkrtest permute pillar pkgconfig plotly plyr png polynom processx promises ps purrr qap quantreg R6 rappdirs rbibutils RColorBrewer Rcpp RcppArmadillo RcppEigen Rdpack reformulas registry reshape reshape2 rintrojs rje rjson RJSONIO rlang rmarkdown rstatix S4Arrays S4Vectors S7 sass scales scatterplot3d Seqinfo seriation shape shiny shinycssloaders shinydashboard shinyjs shinyWidgets showtext showtextdb snow sourcetools SparseArray SparseM stringi stringr SummarizedExperiment survival sys sysfonts tibble tidyr tidyselect timeDate tinytex TSP urca utf8 vctrs vegan viridis viridisLite webshot withr xfun xtable XVector yaml zip zoo

Introduction

Workflow | Example

Rendered fromintro.Rmdusingknitr::rmarkdown

Last update: 2021-03-08
Started: 2018-07-06

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
AND module server logic	and
AND module UI representation	andUI
Function to generate categorical (qualitative) color palettes	categoricalPalettes
Clarion R6-class definition	Clarion
colorPicker module server logic	colorPicker
colorPicker module UI representation	colorPickerUI
columnSelector module server logic	columnSelector
columnSelector module UI representation	columnSelectorUI
Method for geneView creation	create_geneview
Method for heatmap creation	create_heatmap
create a logger used within the package	create_logger
Method for pca creation.	create_pca
Method for scatter plot creation	create_scatterplot
Function to generate diverging (two-sided) color palettes (e.g. for log2fc, zscore)	divergingPalettes
Function used for downloading. Creates a zip container containing plot in png, pdf and user input in json format. Use inside 'downloadHandler' content function.	download
Method to get equalized min/max values from vector	equalize
featureSelector module server logic	featureSelector
featureSelector module guide	featureSelectorGuide
featureSelector module UI representation	featureSelectorUI
Force evaluation of the parent function's arguments.	forceArgs
geneView's module server logic	geneView
geneView module guide	geneViewGuide
geneView's module UI representation	geneViewUI
global correlation heatmap module server logic	global_cor_heatmap
global correlation heatmap module guide	global_cor_heatmap_guide
global correlation heatmap module UI representation	global_cor_heatmapUI
heatmap module server logic	heatmap
heatmap module guide	heatmapGuide
heatmap module UI representation	heatmapUI
Download and install Wilson Apps	install_app
label module server logic	label
label module UI representation	labelUI
limit module server logic	limit
limit module UI representation	limitUI
logger message convenience function	log_message
marker module server logic	marker
marker module UI representation	markerUI
orNumeric module server logic	orNumeric
orNumeric module UI representation	orNumericUI
orTextual module server logic	orTextual
orTextual module UI representation	orTextualUI
Converting MaxQuant Output file proteinGroups.txt to CLARION format by creating a headline of metadata for each column	parse_MaxQuant
Method to parse input file.	parser
pca module server logic	pca
pca module guide	pcaGuide
pca module UI representation	pcaUI
Defines additional questions asked before CRAN submission. DO NOT EXPORT!	release_questions
scatterPlot module server logic	scatterPlot
scatterPlot module guide	scatterPlotGuide
scatterPlot module UI representation	scatterPlotUI
Function to search data for selection	searchData
Function to generate sequential (one-sided) color palettes (e.g. for expression, enrichment)	sequentialPalettes
set a logger used within the package	set_logger
TOBIAS TFBS table to clarion parser	tobias_parser
transformation module server logic	transformation
transformation module UI representation	transformationUI