anglemania

This is the development version of anglemania; for the stable release version, see anglemania.

Feature Extraction for scRNA-seq Dataset Integration

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DOI: 10.18129/B9.bioc.anglemania

Bioconductor version: Development (3.23)

anglemania extracts genes from multi-batch scRNA-seq experiments for downstream dataset integration. It shows improvement over the conventional usage of highly-variable genes for many integration tasks. We leverage gene-gene correlations that are stable across batches to identify biologically informative genes which are less affected by batch effects. Currently, its main use is for single-cell RNA-seq dataset integration, but it can be applied for other multi-batch downstream analyses such as NMF.

Author: Aaron Kollotzek [aut, cre] ORCID iD ORCID: 0009-0009-7142-4015 , Vedran Franke [aut] ORCID iD ORCID: 0000-0003-3606-6792 , Artem Baranovskii [aut], Altuna Akalin [aut], SFB1588 [fnd] (Funded by the DFG – Deutsche Forschungsgemeinschaft)

Maintainer: Aaron Kollotzek <aaron.kollotzek at mdc-berlin.de>

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

Installation

To install this package, start R (version "4.6") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("anglemania")

For older versions of R, please refer to the appropriate Bioconductor release.