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biocLite("RnaSeqTutorial")
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RnaSeqTutorial
RNA-Seq Tutorial (EBI Cambridge UK, October 2011)
Bioconductor version: 3.0
A selection of RNA-Seq data to get familiar with the related Bioconductor core packages and the easyRNASeq package.
Author: Nicolas Delhomme, Ismael Padioleau
Maintainer: Nicolas Delhomme <nicolas.delhomme at umu.se>
Citation (from within R,
enter citation("RnaSeqTutorial")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("RnaSeqTutorial")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("RnaSeqTutorial")
| R Script | RNA-Seq Tutorial | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | ExperimentData, RNAseqData |
| Version | 0.3.1 |
| License | Artistic-2.0 |
| Depends | R (>= 3.0.2), methods, easyRNASeq |
| Imports | |
| LinkingTo | |
| Suggests | Rsamtools, ShortRead, BSgenome.Dmelanogaster.UCSC.dm3, GenomicAlignments, biomaRt, genomeIntervals |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | easyRNASeq |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | RnaSeqTutorial_0.3.1.tar.gz |
| Windows Binary | RnaSeqTutorial_0.3.1.zip |
| Mac OS X 10.6 (Snow Leopard) | RnaSeqTutorial_0.3.1.tgz |
| Mac OS X 10.9 (Mavericks) | RnaSeqTutorial_0.3.1.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
- RNA-Seq workflow: gene-level exploratory analysis and differential expression
- Changing genomic coordinate systems with rtracklayer::liftOver
- Mass spectrometry and proteomics data analysis
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