Package: ClusterGVis 1.0.0
ClusterGVis: One-Step to Cluster and Visualize Gene Expression Data
Provides a streamlined workflow for clustering and visualizing gene expression patterns, particularly from time-series RNA-Seq and single-cell experiments. The package is designed to integrate seamlessly within the Bioconductor ecosystem by operating directly on standard data classes such as `SummarizedExperiment` and `SingleCellExperiment`. It implements common clustering algorithms (e.g., k-means, fuzzy c-means) and generates a suite of publication-ready visualizations to explore co-expressed gene modules. Functions are also included to facilitate the visualization of clustering results derived from other popular tools.
Authors:
ClusterGVis_1.0.0.tar.gz
ClusterGVis_1.0.0.zip(r-4.7)ClusterGVis_1.0.0.zip(r-4.6)ClusterGVis_1.0.0.zip(r-4.5)
ClusterGVis_1.0.0.tgz(r-4.6-any)ClusterGVis_1.0.0.tgz(r-4.5-any)
ClusterGVis_1.0.0.tar.gz(r-4.7-any)ClusterGVis_1.0.0.tar.gz(r-4.6-any)
ClusterGVis_1.0.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
ClusterGVis/json (API)
NEWS
| # Install 'ClusterGVis' in R: |
| install.packages('ClusterGVis', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/junjunlab/clustergvis/issues
- BEAM_res - This is a test data for this package
- exps - This is a test data for this package
- HSMM - This is a test data for this package
- net - This is a test data for this package
- pbmc_subset - This is a test data for this package
- sig_gene_names - This is a test data for this package
- termanno - This is a test data for this package
- termanno2 - This is a test data for this package
On BioConductor:ClusterGVis-1.1.0(bioc 3.24)ClusterGVis-1.0.0(bioc 3.23)
rnaseqtranscriptomicsvisualizationsinglecellgeneexpressionclusteringcomplexheatmapgene-clusteringgene-expressionmfuzz
Last updated from:cd557acaa4 (on RELEASE_3_23). Checks:1 NOTE, 2 WARNING, 7 OK. Indexed: no.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 300 | ||
| linux-devel-x86_64 | WARNING | 608 | ||
| source / vignettes | OK | 366 | ||
| linux-release-x86_64 | OK | 601 | ||
| macos-release-arm64 | OK | 380 | ||
| macos-oldrel-arm64 | OK | 372 | ||
| windows-devel | WARNING | 546 | ||
| windows-release | OK | 469 | ||
| windows-oldrel | OK | 455 | ||
| wasm-release | OK | 274 |
Exports:clusterDataenrichClustergetClustersplot_genes_branched_heatmap2plot_pseudotime_heatmap2prepareDataFromscRNAvisCluster
Dependencies:abindassortheadbackportsbase64encbeachmatBHBiobaseBiocGenericsBiocParallelbootbroombslibcachemcarcarDataclasscliclustercodetoolscolorRampscolorspacecorrplotcowplotcpp11crosstalkDelayedArraydendextendDerivdigestdoBydplyrDTe1071ellipseemmeansestimabilityevaluatefactoextraFactoMineRfarverfastmapflashClustfontawesomeforecastformatRFormulafracdifffsfutile.loggerfutile.optionsgenericsGenomicRangesggplot2ggpubrggrepelggsciggsignifgluegridExtragtablehighrhtmltoolshtmlwidgetsigraphIRangesisobandjquerylibjsonliteknitrlabelinglambda.rlaterlatticelazyevalleapslifecyclelme4lmtestmagrittrMASSMatrixMatrixGenericsMatrixModelsmatrixStatsmemoisemgcvmicrobenchmarkmimeminqamodelrmultcompViewmvtnormnlmenloptrnnetnumDerivotelpbkrtestpillarpkgconfigplyrpolynompromisesproxypurrrquantregR6rappdirsrbibutilsRColorBrewerRcppRcppArmadilloRcppEigenRdpackreformulasreshape2rlangrmarkdownrstatixS4ArraysS4VectorsS7sassscalesscatterplot3dscuttleSeqinfoSingleCellExperimentsnowSparseArraySparseMstringistringrSummarizedExperimentsurvivaltibbletidyrtidyselecttimeDatetinytexurcautf8vctrsVGAMviridisviridisLitewithrxfunXVectoryamlzoo
