MAST
This is thereleased version of MAST; for the devel version, seeMAST.
Model-based Analysis of Single Cell Transcriptomics
Bioconductor version: Release (3.22)
Methods and models for handling zero-inflated single cell assay data.
Author: Andrew McDavid [aut, cre], Greg Finak [aut], Masanao Yajima [aut]
Maintainer: Andrew McDavid <andrew.n.mcdavid at gmail.com>
Citation (from within R, enter
citation("MAST")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("MAST")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("MAST")| An Introduction to MAST | HTML | R Script |
| Interoptability between MAST and SingleCellExperiment-derived packages | HTML | R Script |
| Using MAST for filtering, differential expression and gene set enrichment in MAIT cells | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DifferentialExpression,GeneExpression,GeneSetEnrichment,RNASeq,SingleCell,Software,Transcriptomics |
| Version | 1.36.0 |
| In Bioconductor since | BioC 3.4 (R-3.3) (9 years) |
| License | GPL(>= 2) |
| Depends | SingleCellExperiment(>= 1.2.0), R (>= 3.5) |
| Imports | Biobase,BiocGenerics,S4Vectors,data.table,ggplot2,plyr,stringr,abind, methods, parallel,reshape2, stats, stats4, graphics, utils,SummarizedExperiment(>= 1.5.3),progress,Matrix |
| System Requirements | |
| URL | https://github.com/RGLab/MAST/ |
| Bug Reports | https://github.com/RGLab/MAST/issues |
See More
| Suggests | knitr,rmarkdown,testthat,lme4 (>= 1.0),blme,roxygen2 (> 6.0.0),numDeriv,car,gdata,lattice,GGally,GSEABase,NMF,TxDb.Hsapiens.UCSC.hg19.knownGene,rsvd,limma,RColorBrewer,BiocStyle,scater,DelayedArray,HDF5Array,zinbwave,dplyr |
| Linking To | |
| Enhances | |
| Depends On Me | POWSC |
| Imports Me | celaref,singleCellTK,DWLS |
| Suggests Me | clusterExperiment,EWCE,Seurat,SeuratExplorer |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | MAST_1.36.0.tar.gz |
| Windows Binary (x86_64) | MAST_1.36.0.zip |
| macOS Binary (x86_64) | MAST_1.36.0.tgz |
| macOS Binary (arm64) | MAST_1.36.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MAST |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MAST |
| Bioc Package Browser | https://code.bioconductor.org/browse/MAST/ |
| Package Short Url | https://bioconductor.org/packages/MAST/ |
| Package Downloads Report | Download Stats |