HTSFilter
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see HTSFilter.
Filter replicated high-throughput transcriptome sequencing data
Bioconductor version: 3.9
This package implements a filtering procedure for replicated transcriptome sequencing data based on a global Jaccard similarity index in order to identify genes with low, constant levels of expression across one or more experimental conditions.
Author: Andrea Rau, Melina Gallopin, Gilles Celeux, and Florence Jaffrezic
Maintainer: Andrea Rau <andrea.rau at inra.fr>
citation("HTSFilter")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("HTSFilter")
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("HTSFilter")| HTSFilter Vignette | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DifferentialExpression, GeneExpression, ImmunoOncology, Normalization, Preprocessing, RNASeq, Sequencing, Software |
| Version | 1.24.0 |
| In Bioconductor since | BioC 2.12 (R-3.0) (11 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.4) |
| Imports | edgeR(>= 3.9.14), DESeq2(>= 1.10.1), DESeq(>= 1.22.1), BiocParallel(>= 1.4.3), Biobase, utils, stats, grDevices, graphics, methods |
| System Requirements | |
| URL |
See More
| Suggests | EDASeq(>= 2.1.4), BiocStyle, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | coseq |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | HTSFilter_1.24.0.tar.gz |
| Windows Binary | HTSFilter_1.24.0.zip |
| Mac OS X 10.11 (El Capitan) | HTSFilter_1.24.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/HTSFilter |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/HTSFilter |
| Bioc Package Browser | https://code.bioconductor.org/browse/HTSFilter/ |
| Package Short Url | https://bioconductor.org/packages/HTSFilter/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |