anglemania
This is the released version of anglemania; for the devel version, see anglemania.
Feature Extraction for scRNA-seq Dataset Integration
Bioconductor version: Release (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] 
, Vedran Franke [aut] , Artem Baranovskii [aut], Altuna Akalin [aut], SFB1588 [fnd] (Funded by the DFG – Deutsche Forschungsgemeinschaft)
Maintainer: Aaron Kollotzek <aaron.kollotzek at mdc-berlin.de>
citation("anglemania")):Aaron Kollotzek, Vedran Franke, Artem Baranovskii, Altuna Akalin. anglemania: Feature Extraction for scRNA-seq Dataset Integration. doi:10.18129/B9.bioc.anglemania, R package version 1.2.0, https://bioconductor.org/packages/anglemania.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("anglemania")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("anglemania")| anglemania Tutorial | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | BatchEffect, FeatureExtraction, MultipleComparison, SingleCell, Software |
| Version | 1.2.0 |
| In Bioconductor since | BioC 3.22 (R-4.5) (1 year) |
| License | GPL (>= 3) |
| Depends | R (>= 4.5.0) |
| Imports | bigparallelr, bigstatsr, checkmate, digest, dplyr, Matrix, pbapply, S4Vectors, SingleCellExperiment, stats, SummarizedExperiment, tidyr, withr |
| System Requirements | |
| URL | https://github.com/BIMSBbioinfo/anglemania/ |
| Bug Reports | https://github.com/BIMSBbioinfo/anglemania/issues |
See More
| Suggests | batchelor, BiocStyle, bluster, knitr, magick, matrixStats, patchwork, RcppArmadillo, rmarkdown, scater, scran, Seurat, splatter, testthat (>= 3.0.0), UpSetR |
| Linking To | Rcpp, rmio, bigstatsr |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | anglemania_1.2.0.tar.gz |
| Windows Binary (x86_64) | anglemania_1.2.0.zip (64-bit only) |
| macOS Binary (big-sur-x86_64) | anglemania_1.2.0.tgz |
| macOS Binary (sonoma-arm64) | anglemania_1.2.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/anglemania |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/anglemania |
| Package Short Url | https://bioconductor.org/packages/anglemania/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.23 | Source Archive |