To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("scran")
In most cases, you don't need to download the package archive at all.
scran
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Methods for Single-Cell RNA-Seq Data Analysis
Bioconductor version: Release (3.5)
Implements a variety of low-level analyses of single-cell RNA-seq data. Methods are provided for normalization of cell-specific biases, assignment of cell cycle phase, and detection of highly variable and significantly correlated genes.
Author: Aaron Lun [aut, cre], Karsten Bach [aut], Jong Kyoung Kim [ctb], Antonio Scialdone [ctb], Laleh Haghverdi [ctb]
Maintainer: Aaron Lun <alun at wehi.edu.au>
Citation (from within R,
enter citation("scran")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("scran")
Documentation
| HTML | R Script | Using scran to perform basic analyses of single-cell RNA-seq data |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | BatchEffect, GeneExpression, Normalization, RNASeq, Sequencing, SingleCell, Software, Transcriptomics, Visualization |
| Version | 1.4.5 |
| In Bioconductor since | BioC 3.3 (R-3.3) (1.5 years) |
| License | GPL-3 |
| Depends | R (>= 3.4), BiocParallel, scater |
| Imports | Biobase, stats, methods, utils, graphics, grDevices, Matrix, edgeR, limma, dynamicTreeCut, FNN, igraph, shiny, zoo, statmod, splines, ggplot2, MASS, DT, viridis |
| LinkingTo | |
| Suggests | testthat, knitr, BiocStyle, limSolve, org.Mm.eg.db, DESeq2, monocle, S4Vectors, Rtsne, pracma |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | scDD, scone |
| Suggests Me | splatter |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | scran_1.4.5.tar.gz |
| Windows Binary | scran_1.4.5.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | scran_1.4.5.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/scran |
| Package Short Url | http://bioconductor.org/packages/scran/ |
| Package Downloads Report | Download Stats |
Documentation »
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