Package: wrGraph 1.3.7

wrGraph: Graphics in the Context of Analyzing High-Throughput Data

Additional options for making graphics in the context of analyzing high-throughput data are available here. This includes automatic segmenting of the current device (eg window) to accommodate multiple new plots, automatic checking for optimal location of legends in plots, small histograms to insert as legends, histograms re-transforming axis labels to linear when plotting log2-transformed data, a violin-plot <doi:10.1080/00031305.1998.10480559> function for a wide variety of input-formats, principal components analysis (PCA) <doi:10.1080/14786440109462720> with bag-plots <doi:10.1080/00031305.1999.10474494> to highlight and compare the center areas for groups of samples, generic MA-plots (differential- versus average-value plots) <doi:10.1093/nar/30.4.e15>, staggered count plots and generation of mouse-over interactive html pages.

Authors:Wolfgang Raffelsberger [aut, cre]

wrGraph_1.3.7.tar.gz
wrGraph_1.3.7.zip(r-4.5)wrGraph_1.3.7.zip(r-4.4)wrGraph_1.3.7.zip(r-4.3)
wrGraph_1.3.7.tgz(r-4.4-any)wrGraph_1.3.7.tgz(r-4.3-any)
wrGraph_1.3.7.tar.gz(r-4.5-noble)wrGraph_1.3.7.tar.gz(r-4.4-noble)
wrGraph_1.3.7.tgz(r-4.4-emscripten)wrGraph_1.3.7.tgz(r-4.3-emscripten)
wrGraph.pdf |wrGraph.html✨
wrGraph/json (API)

# Install 'wrGraph' in R:
install.packages('wrGraph', repos = c('https://wraff.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

2.00 score 6 scripts 903 downloads 27 exports 4 dependencies

Last updated 10 months agofrom:da90031d89. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 01 2024
R-4.5-winOKNov 01 2024
R-4.5-linuxOKNov 01 2024
R-4.4-winOKNov 01 2024
R-4.4-macOKNov 01 2024
R-4.3-winOKNov 01 2024
R-4.3-macOKNov 01 2024

Exports:.addTextToPoints.bestLegendLoc.colorByPvalue.determFigMargPix.levIndex.predPointsPix.sampNoDeMArrayLM.serachColNameaddBagPlotcheckForLegLocconvertPlotCoordPixcumFrqPlotfoldChangeArrowhistWimageWlegendHistMAplotWmouseOverHtmlFilepartitionPlotplotBy2GroupsplotLinRegplotPCAwplotW2LegprofileAsClustaggerdCountsPlotvioplotWVolcanoPlotW

Dependencies:latticeMASSRColorBrewerwrMisc

Getting started with wrGraph

Wolfgang Raffelsberger

Rendered fromwrGraphVignette1.Rmdusingknitr::rmarkdownon Nov 01 2024.

Last update: 2024-01-23
Started: 2020-06-02

Readme and manuals

Help Manual

Help pageTopics
Add text to points on plot.addTextToPoints
Search best corner of plot for placing for legend This function aims to find best corner for plotting a legend..bestLegendLoc
Colors based on p-Values.colorByPvalue
Estimate size/distance of margin to edge of image (png) in pixels.determFigMargPix
Transform levels into index.levIndex
Predict and return pixel location of points of current plot.predPointsPix
Locate sample index from index or name of pair-wise comparisons.sampNoDeMArrayLM
Search Column Name This function provides help when seraching column names.serachColName
Add bagplot to existing plotaddBagPlot
Find best place on plot for placing legendcheckForLegLoc
Convert points of plot to coordinates in pixelsconvertPlotCoordPix
Cumulative (or sorted) frequency plot (takes columns of 'dat' as separate series)cumFrqPlot
Add arrow for expected Fold-Change to VolcanoPlot or MA-plotfoldChangeArrow
Histogram (version by WR)histW
Display numeric content of matrix as imageimageW
Add histogram to existing plotlegendHist
MA-plot (differential intensity versus average intensity)MAplotW
Create mouse-over interactive html-pages (with links)mouseOverHtmlFile
Make matrix for layout to partition plotting areapartitionPlot
Separate and plot data by 2 groupsplotBy2Groups
Plot linear regression and confidence interval of regressionplotLinReg
PCA plot with bag-plot to highlight groupsplotPCAw
x-y plot with 2 legendsplotW2Leg
Plot profiles according to CLusteringprofileAsClu
Staggered Chart for Ploting Counts to Multiple Leveles of the Threshold usedstaggerdCountsPlot
Violin-plots version WvioplotW
Volcano-Plot (Statistical Test Outcome versus Relative Change)VolcanoPlotW