yarn
This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see yarn.
YARN: Robust Multi-Condition RNA-Seq Preprocessing and Normalization
Bioconductor version: 3.6
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 <jpaulson at jimmy.harvard.edu>
citation("yarn")):
Installation
To install this package, start R (version "3.4") 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 | 1.4.0 |
| 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_1.4.0.tar.gz |
| Windows Binary | yarn_1.4.0.zip |
| Mac OS X 10.11 (El Capitan) | yarn_1.4.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/yarn |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/yarn |
| Package Short Url | https://bioconductor.org/packages/yarn/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |