scFeatureFilter

DOI: 10.18129/B9.bioc.scFeatureFilter    

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

Bioconductor version: Release (3.7)

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>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("scFeatureFilter")

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, Preprocessing, RNASeq, SingleCell, Software
Version 1.0.0
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
Build Report  

Package Archives

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

Source Package scFeatureFilter_1.0.0.tar.gz
Windows Binary scFeatureFilter_1.0.0.zip
Mac OS X 10.11 (El Capitan) scFeatureFilter_1.0.0.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/
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