scran

This is the released version of scran; for the devel version, see scran.

Methods for Single-Cell RNA-Seq Data Analysis

Installation

To install this package, start R (version "4.5") and enter:

if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("scran")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("scran")

Details

See More

Suggests testthat, BiocStyle, knitr, rmarkdown, DelayedMatrixStats, HDF5Array, scRNAseq, dynamicTreeCut, ResidualMatrix, ScaledMatrix, DESeq2, pheatmap, scater

Linking To Rcpp, beachmat, BH, dqrng, scuttle

Enhances

Depends On Me OSCA.advanced, OSCA.basic, OSCA.intro, OSCA.multisample, OSCA.workflows, SingleRBook

Imports Me BASiCS, BASiCStan, BatchQC, BayesSpace, BioTIP, celda, chevreulPlot, chevreulProcess, ChromSCape, CiteFuse, Coralysis, DeconvoBuddies, Dino, epiregulon, epiregulon.extra, FLAMES, MOSim, MPAC, msImpute, mumosa, pipeComp, scDblFinder, scDD, scMerge, scTreeViz, singleCellTK, Spaniel, SpaNorm, OSTA, mixhvg, SpatialDDLS

Suggests Me anglemania, APL, Banksy, batchelor, blase, bluster, CellTrails, clusterExperiment, decontX, destiny, dittoSeq, DOtools, escape, escheR, ExperimentSubset, ggsc, ggspavis, Glimma, glmGamPoi, GSVA, iSEEu, jazzPanda, miloR, Nebulosa, nnSVG, raer, ReactomeGSA, scDiagnostics, scDotPlot, schex, scLANE, scone, scuttle, simPIC, SingleCellAlleleExperiment, sketchR, smoothclust, splatter, SPOTlight, StabMap, SuperCellCyto, SVP, tidySingleCellExperiment, tpSVG, transformGamPoi, TSCAN, velociraptor, Voyager, HCAData, SingleCellMultiModal, TabulaMurisData, simpleSingleCell, Canek, SCdeconR

Links To Me

Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.