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grandR
View on CRAN: Click
here
Download and install grandR package within the R console
Install from CRAN:
install.packages("grandR")
Install from Github:
library("remotes")
install_github("cran/grandR")
Install by package version:
library("remotes")
install_version("grandR", "0.2.6")
Attach the package and use:
library("grandR")
Maintained by
Florian Erhard
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
10.32614/CRAN.package.grandR . https://github.com/erhard-lab/grandR/issues . https://github.com/erhard-lab/grandR . grandR citation info . grandR results . grandR.pdf . grandR_0.2.6.tar.gz . grandR_0.2.6.zip . grandR_0.2.6.zip . grandR_0.2.6.zip . grandR_0.2.6.tgz . grandR_0.2.6.tgz . grandR_0.2.6.tgz . grandR_0.2.6.tgz . grandR_0.2.6.tgz . grandR_0.2.6.tgz . grandR archive . https://CRAN.R-project.org/package=grandR .
First Published: 2022-09-20
Latest Update: 2023-04-20
Description:
Nucleotide conversion sequencing experiments have been
developed to add a temporal dimension to RNA-seq and single-cell RNA-seq. Such
experiments require specialized tools for primary processing such as GRAND-SLAM,
(see 'J
How to cite:
Florian Erhard (2022). grandR: Comprehensive Analysis of Nucleotide Conversion Sequencing Data. R package version 0.2.6, https://cran.r-project.org/web/packages/grandR. Accessed 20 Feb. 2025.
Previous versions and publish date:
Other packages that cited grandR R package
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Other R packages that grandR depends,
imports, suggests or enhances
Complete documentation for grandR
Functions, R codes and Examples using
the grandR R package
Some associated functions: Analyses . AnalyzeGeneSets . ApplyContrasts . CalibrateEffectiveLabelingTimeKineticFit . CalibrateEffectiveLabelingTimeMatchHalflives . ClassifyGenes . Coldata . ComputeAbsolute . ComputeExpressionPercentage . ComputeNonConstantParam . ComputeNtrPosteriorQuantile . ComputePseudoNtr . ComputeSteadyStateHalfLives . ComputeSummaryStatistics . Condition . CreatePdfs . DESeq2BIC . DefaultSlot . Defer . Design . DesignSemantics . EstimateRegulation . FilterGenes . FindReferences . Findno4sUPairs . FitKinetics . FitKineticsGeneLeastSquares . FitKineticsGeneLogSpaceLinear . FitKineticsGeneNtr . FitKineticsGeneSnapshot . FitKineticsPulseR . FitKineticsSnapshot . FormatCorrelation . GeneInfo . Genes . GetAnalysisTable . GetContrasts . GetData . GetDiagnosticParameters . GetMatrix . GetSignificantGenes . GetSummarizeMatrix . GetTable . IsParallel . LFC . LikelihoodRatioTest . ListGeneSets . MAPlot . MakeColdata . Normalize . NormalizeBaseline . Pairwise . PairwiseDESeq2 . PlotAnalyses . PlotConversionFreq . PlotGeneGroupsBars . PlotGeneGroupsPoints . PlotGeneOldVsNew . PlotGeneProgressiveTimecourse . PlotGeneSnapshotTimecourse . PlotGeneTotalVsNtr . PlotHeatmap . PlotMismatchPositionForSample . PlotMismatchPositionForType . PlotModelCompareConv . PlotModelCompareErr . PlotModelCompareErrPrior . PlotModelCompareLL . PlotModelCompareNtr . PlotModelConv . PlotModelErr . PlotModelLabelTimeCourse . PlotModelNtr . PlotModelShape . PlotPCA . PlotProfileLikelihood . PlotScatter . PlotSimulation . PlotTypeDistribution . Plots . ReadCounts . ReadGRAND . ReadGRAND3 . ReadNewTotal . RotatateAxisLabels . SaveNtrSlot . Scale . Semantics.concentration . Semantics.time . ServeGrandR . SetParallel . SimulateKinetics . SimulateReadsForSample . SimulateTimeCourse . SimulateTimeCourseNonConstant . Slots . ToIndex . Transform.no . TransformSnapshot . UpdateSymbols . UseNtrSlot . VulcanoPlot . as.Seurat.grandR . check.analysis . correctdropout . data.apply . density2d . dropout . dropoutpercent . estimate.dispersion . f.nonconst.linear . f.nonconst . f.old.equi . get.mode.slot . grandR . psapply . structure2vector .
Some associated R codes: diagnostics.R . diffexp.R . dropout.R . grandR.R . load.R . modeling.R . paramest.R . plot.R . processing.R . readsimulator.R . seurat.R . shiny.R . utils.R . Full grandR package functions and examples
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