scBFA
This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see scBFA.
A dimensionality reduction tool using gene detection pattern to mitigate noisy expression profile of scRNA-seq
Bioconductor version: 3.21
This package is designed to model gene detection pattern of scRNA-seq through a binary factor analysis model. This model allows user to pass into a cell level covariate matrix X and gene level covariate matrix Q to account for nuisance variance(e.g batch effect), and it will output a low dimensional embedding matrix for downstream analysis.
Author: Ruoxin Li [aut, cre], Gerald Quon [aut]
Maintainer: Ruoxin Li <uskli at ucdavis.edu>
citation("scBFA")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("scBFA")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("scBFA")
Details
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Follow Installation instructions to use this package in your R session.