Package: chevreulPlot 1.5.0

Kevin Stachelek

chevreulPlot: Plots used in the chevreulPlot package

Tools for plotting SingleCellExperiment objects in the chevreulPlot package. Includes functions for analysis and visualization of single-cell data. Supported by NIH grants R01CA137124 and R01EY026661 to David Cobrinik.

Authors:Kevin Stachelek [aut, cre], Bhavana Bhat [aut]

chevreulPlot_1.5.0.tar.gz
chevreulPlot_1.5.0.zip(r-4.7)chevreulPlot_1.5.0.zip(r-4.6)chevreulPlot_1.5.0.zip(r-4.5)
chevreulPlot_1.5.0.tgz(r-4.6-any)chevreulPlot_1.5.0.tgz(r-4.5-any)
chevreulPlot_1.5.0.tar.gz(r-4.7-any)chevreulPlot_1.5.0.tar.gz(r-4.6-any)
chevreulPlot_1.5.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
chevreulPlot/json (API)

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

Bug tracker:https://github.com/cobriniklab/chevreulplot/issues

Datasets:

On BioConductor:chevreulPlot-1.5.0(bioc 3.24)chevreulPlot-1.4.0(bioc 3.23)

coveragernaseqsequencingvisualizationgeneexpressiontranscriptionsinglecelltranscriptomicsnormalizationpreprocessingqualitycontroldimensionreductiondataimport

4.78 score 1 packages 3 scripts 8 exports 218 dependencies

Last updated from:f76fc87174. Checks:1 NOTE, 7 WARNING, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE305
linux-devel-x86_64WARNING569
source / vignettesOK395
linux-release-x86_64WARNING586
macos-release-arm64WARNING407
macos-oldrel-arm64WARNING272
windows-develWARNING466
windows-releaseWARNING436
windows-oldrelWARNING492
wasm-releaseOK293

Exports:make_complex_heatmapplot_all_transcriptsplot_colData_histogramplot_colData_on_embeddingplot_feature_on_embeddingplot_marker_featuresplot_transcript_compositionplot_violin

Dependencies:abindAnnotationDbiAnnotationFilteraskpassassertthatassortheadbackportsbase64encbatchelorbeachmatbeeswarmBHBiobaseBiocBaseUtilsBiocGenericsBiocIOBiocNeighborsBiocParallelBiocSingularBiostringsbitbit64bitopsblobblusterbriobslibcachemcallrcheckmatechevreulProcesscigarillocirclizeclicliprclueclusterclustreecmdfuncodetoolscolorspaceComplexHeatmapcowplotcpp11crayoncredentialscrosstalkcurldata.tableDBIDelayedArrayDelayedMatrixStatsdescdiffobjdigestdoParalleldplyrdqrngedgeREnsDb.Hsapiens.v86ensembldbevaluatefarverfastmapFNNfontawesomeforcatsforeachformatRfsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomicAlignmentsGenomicFeaturesGenomicRangesgertGetoptLongggbeeswarmggforceggplot2ggraphggrepelgitcredsGlobalOptionsgluegraphlayoutsgridExtragtablehighrhmshtmltoolshtmlwidgetshttrhttr2igraphiniIRangesirlbaisobanditeratorsjquerylibjsonliteKEGGRESTknitrlabelinglambda.rlaterlatticelazyevallifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmegadepthmemoisemetapodmimeopensslotelpatchworkpheatmappillarpkgbuildpkgconfigpkgloadplotlypngpolyclippraiseprettyunitsprocessxprogresspromisesProtGenericspspurrrR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppRcppAnnoyRcppArmadilloRcppEigenRcppMLRcppProgressRCurlreadrResidualMatrixrestfulrRhtslibrjsonrlangrmarkdownrprojrootRsamtoolsRSpectraRSQLiterstudioapirsvdrtracklayerRtsneS4ArraysS4VectorsS7sassScaledMatrixscalesscaterscranscuttleSeqinfoshapeSingleCellExperimentsitmosnowSparseArraysparseMatrixStatsstatmodstringistringrSummarizedExperimentsyssystemfontstestthattibbletidygraphtidyrtidyselecttinytextweenrtzdbUCSC.utilsusethisutf8uwotvctrsviporviridisviridisLitevroomwaldowhiskerwiggleplotrwithrxfunXMLXVectoryamlzip

Visualization
Plot expression | Plot read count or other QC measurements | Plot metadata variable | Plot cluster marker genes | Plotting transcript composition
Rendered fromvisualization.Rmdusingknitr::rmarkdown

Last update: 2025-03-22
Started: 2024-10-23

Chevreul
Basics | Install chevreulPlot | Required knowledge | Asking for help | Quick start to using chevreulPlot
Rendered fromchevreulPlot.Rmdusingknitr::rmarkdown

Last update: 2025-02-11
Started: 2024-10-23