MAST
This is the development version of MAST; for the stable release version, see MAST.
Model-based Analysis of Single Cell Transcriptomics
Bioconductor version: Development (3.19)
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_McDavid at urmc.rochester.edu>
Citation (from within R, enter
citation("MAST")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("MAST")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | DifferentialExpression, GeneExpression, GeneSetEnrichment, RNASeq, SingleCell, Software, Transcriptomics |
| Version | 1.29.0 |
| In Bioconductor since | BioC 3.4 (R-3.3) (7.5 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 | benchdamic, celaref, singleCellTK |
| Suggests Me | clusterExperiment, EWCE |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | |
| Windows Binary | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/MAST |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MAST |
| Package Short Url | https://bioconductor.org/packages/MAST/ |
| Package Downloads Report | Download Stats |