This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see scone.
Bioconductor version: 3.8
SCONE is an R package for comparing and ranking the performance of different normalization schemes for single-cell RNA-seq and other high-throughput analyses.
Author: Michael Cole [aut, cre, cph], Davide Risso [aut, cph]
Maintainer: Michael Cole <mbeloc at gmail.com>
Citation (from within R,
enter citation("scone")
):
To install this package, start R (version "3.5") and enter:
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("scone")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("scone")
HTML | R Script | scone Vignette |
Reference Manual | ||
Text | NEWS |
biocViews | Coverage, GeneExpression, ImmunoOncology, Normalization, Preprocessing, QualityControl, RNASeq, Sequencing, SingleCell, Software, Transcriptomics |
Version | 1.6.1 |
In Bioconductor since | BioC 3.5 (R-3.4) (2 years) |
License | Artistic-2.0 |
Depends | R (>= 3.4), methods, SummarizedExperiment |
Imports | graphics, stats, utils, aroma.light, BiocParallel, class, cluster, compositions, diptest, edgeR, fpc, gplots, grDevices, hexbin, limma, matrixStats, mixtools, RColorBrewer, boot, rhdf5, RUVSeq, rARPACK |
LinkingTo | |
Suggests | BiocStyle, DT, ggplot2, knitr, miniUI, NMF, plotly, reshape2, rmarkdown, scran, scRNAseq, shiny, testthat, visNetwork |
SystemRequirements | |
Enhances | |
URL | |
BugReports | https://github.com/YosefLab/scone/issues |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | scone_1.6.1.tar.gz |
Windows Binary | scone_1.6.1.zip |
Mac OS X 10.11 (El Capitan) | scone_1.6.1.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/scone |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/scone |
Package Short Url | http://bioconductor.org/packages/scone/ |
Package Downloads Report | Download Stats |
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