GeuvadisTranscriptExpr
This is the development version of GeuvadisTranscriptExpr; for the stable release version, see GeuvadisTranscriptExpr.
Data package with transcript expression and bi-allelic genotypes from the GEUVADIS project
Bioconductor version: Development (3.24)
Provides transcript expression and bi-allelic genotypes corresponding to the chromosome 19 for CEU individuals from the GEUVADIS project, Lappalainen et al.
Author: Malgorzata Nowicka [aut, cre]
Maintainer: Malgorzata Nowicka <gosia.nowicka at uzh.ch>
citation("GeuvadisTranscriptExpr")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("GeuvadisTranscriptExpr")
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("GeuvadisTranscriptExpr")| Preprocessing and preparation of transcript expression and genotypes from the GEUVADIS project for sQTL analysis | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ExperimentData, ExpressionData, Genome, Homo_sapiens_Data, RNASeqData, SNPData, SequencingData |
| Version | 1.41.0 |
| License | GPL (>= 3) |
| Depends | R (>= 3.5.0) |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | limma, rtracklayer, GenomicRanges, Rsamtools, VariantAnnotation, tools, BiocStyle, knitr, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | DRIMSeq |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | GeuvadisTranscriptExpr_1.41.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/GeuvadisTranscriptExpr |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/GeuvadisTranscriptExpr |
| Package Short Url | https://bioconductor.org/packages/GeuvadisTranscriptExpr/ |
| Package Downloads Report | Download Stats |