StabMap (original) (raw)

This is the released version of StabMap; for the devel version, seeStabMap.

Stabilised mosaic single cell data integration using unshared features

Bioconductor version: Release (3.20)

StabMap performs single cell mosaic data integration by first building a mosaic data topology, and for each reference dataset, traverses the topology to project and predict data onto a common embedding. Mosaic data should be provided in a list format, with all relevant features included in the data matrices within each list object. The output of stabMap is a joint low-dimensional embedding taking into account all available relevant features. Expression imputation can also be performed using the StabMap embedding and any of the original data matrices for given reference and query cell lists.

Author: Shila Ghazanfar [aut, cre, ctb], Aiden Jin [ctb], Nicholas Robertson [ctb]

Maintainer: Shila Ghazanfar

Citation (from within R, enter citation("StabMap")):

Installation

To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("StabMap")

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("StabMap")

Details

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Follow Installation instructions to use this package in your R session.