Package: iSEEtree 1.6.0
Giulio Benedetti
iSEEtree: Interactive visualisation for microbiome data
iSEEtree is an extension of iSEE for the TreeSummarizedExperiment data container. It provides interactive panel designs to explore hierarchical datasets, such as the microbiome and cell lines.
Authors:
iSEEtree_1.6.0.tar.gz
iSEEtree_1.6.0.zip(r-4.7)iSEEtree_1.6.0.zip(r-4.6)iSEEtree_1.6.0.zip(r-4.5)
iSEEtree_1.6.0.tgz(r-4.6-any)iSEEtree_1.6.0.tgz(r-4.5-any)
iSEEtree_1.6.0.tar.gz(r-4.7-any)iSEEtree_1.6.0.tar.gz(r-4.6-any)
iSEEtree_1.6.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
iSEEtree/json (API)
NEWS
| # Install 'iSEEtree' in R: |
| install.packages('iSEEtree', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/microbiome/iseetree/issues
On BioConductor:iSEEtree-1.7.0(bioc 3.24)iSEEtree-1.6.0(bioc 3.23)
softwarevisualizationmicrobiomeguishinyappsdataimportshiny-appsvisualisation
Last updated from:7bf798969c (on RELEASE_3_23). Checks:8 NOTE, 2 OK. Indexed: no.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 258 | ||
| linux-devel-x86_64 | NOTE | 459 | ||
| source / vignettes | OK | 363 | ||
| linux-release-x86_64 | NOTE | 565 | ||
| macos-release-arm64 | NOTE | 254 | ||
| macos-oldrel-arm64 | NOTE | 375 | ||
| windows-devel | NOTE | 461 | ||
| windows-release | NOTE | 369 | ||
| windows-oldrel | NOTE | 392 | ||
| wasm-release | OK | 205 |
Exports:.check_all_panels.check_panelAbundanceDensityPlotAbundancePlotColumnGraphPlotColumnTreePlotiSEELoadingPlotPrevalencePlotRDAPlotRowGraphPlotRowTreePlotScreePlot
Dependencies:abindapeaplotassortheadbase64encbeachmatbeeswarmBHBiobaseBiocBaseUtilsBiocGenericsBiocNeighborsBiocParallelBiocSingularBiostringsblusterbslibcachemCairocirclizecliclueclustercodetoolscolorspacecolourpickercommonmarkComplexHeatmapcpp11crayoncrosstalkDBIDECIPHERdecontamDelayedArrayDelayedMatrixStatsdigestDirichletMultinomialdoParalleldplyrdqrngDTecodiveevaluatefarverfastmapFNNfontawesomefontBitstreamVerafontLiberationfontquiverforeachformatRfsfutile.loggerfutile.optionsgdtoolsgenericsGenomicRangesGetoptLongggbeeswarmggforceggfunggiraphggnewscaleggplot2ggplotifyggraphggrastrggrepelggtreeGlobalOptionsgluegraphlayoutsgridExtragridGraphicsgtablehighrhtmltoolshtmlwidgetshttpuvigraphIRangesirlbaiSEEisobanditeratorsjaneaustenrjquerylibjsonliteknitrlabelinglambda.rlaterlatticelazyevallifecyclelistviewermagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmiamiaVizmimeminiUIMultiAssayExperimentnlmeotelpatchworkpermutepheatmappillarpkgconfigplyrpngpolyclippromisespurrrR6raggrappdirsRColorBrewerRcppRcppAnnoyRcppArmadilloRcppEigenRcppMLRcppProgressreshape2rintrojsrjsonrlangrmarkdownRSpectrarsvdRtsneS4ArraysS4VectorsS7sassScaledMatrixscalesscaterscuttleSeqinfoshapeshinyshinyAceshinydashboardshinyjsshinyWidgetsSingleCellExperimentsitmosnowSnowballCsourcetoolsSparseArraysparseMatrixStatsstringistringrSummarizedExperimentsystemfontstextshapingtibbletidygraphtidyrtidyselecttidytexttidytreetinytextokenizerstreeioTreeSummarizedExperimenttweenrutf8uwotvctrsveganviporviridisviridisLitewithrxfunxtableXVectoryamlyulab.utils
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Abundance density plot | AbundanceDensityPlot AbundanceDensityPlot-class |
| Abundance plot | AbundancePlot AbundancePlot-class |
| Column graph plot | ColumnGraphPlot ColumnGraphPlot-class |
| Column tree plot | ColumnTreePlot ColumnTreePlot-class |
| Graph plot | GraphPlot GraphPlot-class |
| iSEE layout for TreeSE | iSEE iSEE,TreeSummarizedExperiment-method |
| Loading plot | LoadingPlot LoadingPlot-class |
| Prevalence plot | PrevalencePlot PrevalencePlot-class |
| RDA plot | RDAPlot RDAPlot-class |
| Row graph plot | RowGraphPlot RowGraphPlot-class |
| Row tree plot | RowTreePlot RowTreePlot-class |
| Scree plot | ScreePlot ScreePlot-class |
| Tree plot | TreePlot TreePlot-class |
