scFeatureFilter
This package is for version 3.9 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: 3.9
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("scFeatureFilter")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("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")| Introduction to scFeatureFilter | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | GeneExpression, ImmunoOncology, Preprocessing, RNASeq, SingleCell, Software |
| Version | 1.4.0 |
| In Bioconductor since | BioC 3.7 (R-3.5) (6 years) |
| 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 |
| System Requirements | |
| URL |
See More
| Suggests | testthat, knitr, rmarkdown, SingleCellExperiment, SummarizedExperiment, scRNAseq, cowplot |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | scFeatureFilter_1.4.0.tar.gz |
| Windows Binary | scFeatureFilter_1.4.0.zip |
| Mac OS X 10.11 (El Capitan) | scFeatureFilter_1.4.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/scFeatureFilter |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/scFeatureFilter |
| Bioc Package Browser | https://code.bioconductor.org/browse/scFeatureFilter/ |
| Package Short Url | https://bioconductor.org/packages/scFeatureFilter/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |