DOI: 10.18129/B9.bioc.slalom    

Factorial Latent Variable Modeling of Single-Cell RNA-Seq Data

Bioconductor version: Release (3.6)

slalom is a scalable modelling framework for single-cell RNA-seq data that uses gene set annotations to dissect single-cell transcriptome heterogeneity, thereby allowing to identify biological drivers of cell-to-cell variability and model confounding factors.

Author: Florian Buettner [aut], Naruemon Pratanwanich [aut], Davis McCarthy [aut, cre], John Marioni [aut], Oliver Stegle [aut]

Maintainer: Davis McCarthy <davis at>

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biocViews DimensionReduction, GeneExpression, Normalization, RNASeq, Reactome, Sequencing, SingleCell, Software, Transcriptomics, Visualization
Version 1.0.0
License GPL-2
Depends R (>= 3.4)
Imports Rcpp (>= 0.12.8), RcppArmadillo, BH, ggplot2, grid, GSEABase, methods, rsvd, SingleCellExperiment, SummarizedExperiment, stats
LinkingTo Rcpp, RcppArmadillo, BH
Suggests knitr, rhdf5, scater, testthat
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