yarn
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see yarn.
YARN: Robust Multi-Condition RNA-Seq Preprocessing and Normalization
Bioconductor version: 3.9
Expedite large RNA-Seq analyses using a combination of previously developed tools. YARN is meant to make it easier for the user in performing basic mis-annotation quality control, filtering, and condition-aware normalization. YARN leverages many Bioconductor tools and statistical techniques to account for the large heterogeneity and sparsity found in very large RNA-seq experiments.
Author: Joseph N Paulson [aut, cre], Cho-Yi Chen [aut], Camila Lopes-Ramos [aut], Marieke Kuijjer [aut], John Platig [aut], Abhijeet Sonawane [aut], Maud Fagny [aut], Kimberly Glass [aut], John Quackenbush [aut]
Maintainer: Joseph N Paulson <paulson.joseph at gene.com>
citation("yarn")
):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("yarn")
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("yarn")
YARN: Robust Multi-Tissue RNA-Seq Preprocessing and Normalization | R Script | |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Annotation, Clustering, GeneExpression, Normalization, Preprocessing, QualityControl, Sequencing, Software, Visualization |
Version | 1.10.0 |
In Bioconductor since | BioC 3.4 (R-3.3) (7.5 years) |
License | Artistic-2.0 |
Depends | Biobase |
Imports | biomaRt, downloader, edgeR, gplots, graphics, limma, matrixStats, preprocessCore, readr, RColorBrewer, stats, quantro |
System Requirements | |
URL |
See More
Suggests | knitr, rmarkdown, testthat (>= 0.8) |
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 | yarn_1.10.0.tar.gz |
Windows Binary | yarn_1.10.0.zip |
Mac OS X 10.11 (El Capitan) | yarn_1.10.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/yarn |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/yarn |
Bioc Package Browser | https://code.bioconductor.org/browse/yarn/ |
Package Short Url | https://bioconductor.org/packages/yarn/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.9 | Source Archive |