yarn
This is the released version of yarn; for the devel version, see yarn.
YARN: Robust Multi-Condition RNA-Seq Preprocessing and Normalization
Bioconductor version: Release (3.23)
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")):Joseph N Paulson, Cho-Yi Chen, Camila Lopes-Ramos, Marieke Kuijjer, John Platig, Abhijeet Sonawane, Maud Fagny, Kimberly Glass, John Quackenbush. yarn: YARN: Robust Multi-Condition RNA-Seq Preprocessing and Normalization. doi:10.18129/B9.bioc.yarn, R package version 1.38.0, https://bioconductor.org/packages/yarn.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") 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 | 1.38.0 |
| In Bioconductor since | BioC 3.4 (R-3.3) (10 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, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | yarn_1.38.0.tar.gz |
| Windows Binary (x86_64) | yarn_1.38.0.zip |
| macOS Binary (big-sur-x86_64) | yarn_1.38.0.tgz |
| macOS Binary (sonoma-arm64) | yarn_1.38.0.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 |