scFeatureFilter

DOI: 10.18129/B9.bioc.scFeatureFilter    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see scFeatureFilter.

A correlation-based method for quality filtering of single-cell RNAseq data

Bioconductor version: 3.8

An R implementation of the correlation-based method developed in the Joshi laboratory to analyse and filter processed single-cell RNAseq data. It returns a filtered version of the data containing only genes expression values unaffected by systematic noise.

Author: Angeles Arzalluz-Luque [aut], Guillaume Devailly [aut, cre], Anagha Joshi [aut]

Maintainer: Guillaume Devailly <gdevailly at hotmail.com>

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("scFeatureFilter")

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("scFeatureFilter")

 

HTML	R Script	Introduction to scFeatureFilter
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	GeneExpression, ImmunoOncology, Preprocessing, RNASeq, SingleCell, Software
Version	1.2.1
In Bioconductor since	BioC 3.7 (R-3.5) (1 year)
License	MIT + file LICENSE
Depends	R (>= 3.5)
Imports	dplyr (>= 0.7.3), ggplot2 (>= 2.1.0), magrittr (>= 1.5), rlang (>= 0.1.2), tibble (>= 1.3.4), stats, methods
LinkingTo
Suggests	testthat, knitr, rmarkdown, SingleCellExperiment, SummarizedExperiment, scRNAseq, cowplot
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	scFeatureFilter_1.2.1.tar.gz
Windows Binary	scFeatureFilter_1.2.1.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	scFeatureFilter_1.2.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/scFeatureFilter
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/scFeatureFilter
Package Short Url	http://bioconductor.org/packages/scFeatureFilter/
Package Downloads Report	Download Stats