To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("MAST")

In most cases, you don't need to download the package archive at all.

MAST

This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see MAST.

Model-based Analysis of Single Cell Transcriptomics

Bioconductor version: 3.4

Methods and models for handling zero-inflated single cell assay data.

Author: Andrew McDavid <Andrew_McDavid at urmc.rochester.edu>, Greg Finak <gfinak at fredhutch.org>, Masanao Yajima <myajima at fredhutch.org>

Maintainer: Andrew McDavid <Andrew_McDavid at urmc.rochester.edu>

Citation (from within R, enter citation("MAST")):

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("MAST")

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

browseVignettes("MAST")

PDF	R Script	MAST-intro
HTML	R Script	Using MAST for filtering, differential expression and gene set enrichment in MAIT cells
PDF		Reference Manual
Text		NEWS

biocViews	DifferentialExpression, GeneExpression, GeneSetEnrichment, RNASeq, SingleCell, Software, Transcriptomics
Version	1.0.5
In Bioconductor since	BioC 3.4 (R-3.3) (0.5 years)
License	GPL(>= 2)
Depends	SummarizedExperiment, R (>= 3.3)
Imports	Biobase, BiocGenerics, S4Vectors, data.table, ggplot2, plyr, stringr, abind, methods, parallel, reshape2, stats, stats4, graphics, utils
LinkingTo
Suggests	knitr, rmarkdown, testthat, lme4 (>= 1.0), roxygen2 (> 4.0.0), numDeriv, car, gdata, lattice, GGally, GSEABase, NMF, TxDb.Hsapiens.UCSC.hg19.knownGene, rsvd, limma, RColorBrewer
SystemRequirements
Enhances
URL	https://github.com/RGLab/MAST/
BugReports	https://github.com/RGLab/MAST/issues
Depends On Me
Imports Me
Suggests Me
Build Report

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

Package Source	MAST_1.0.5.tar.gz
Windows Binary	MAST_1.0.5.zip
Mac OS X 10.9 (Mavericks)	MAST_1.0.5.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/MAST/tree/release-3.4
Package Short Url	http://bioconductor.org/packages/MAST/
Package Downloads Report	Download Stats

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