MAST fits two-part, generalized linear models that are specially adapted for bimodal and/or zero-inflated single cell gene expression data.
Vignettes are available in the package via
SummarizedExperimentunder the hood, and is in Bioconductor. The main difference is that the data container is now transposed to follow bioconductor standards. The older version will remain accessible under branch MASTClassic
If you find MAST useful in your work, please consider citing the paper: MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data G Finak, A McDavid, M Yajima, J Deng, V Gersuk, AK Shalek, CK Slichter et al Genome biology 16 (1), 278
If you have previously installed the package
SingleCellAssay you will want to remove it as
SingleCellAssay. (If both
SingleCellAssay are attached, opaque S4 dispatch errors will result.) Remove it with:
Then you may install or update
If you have data analyzed using MASTClassic, starting with MAST package version 1.0.4 you can convert
objects from MASTClassic format to the new format based on SummarizedExperiment using
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