To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("NOISeq")
In most cases, you don't need to download the package archive at all.
NOISeq
Exploratory analysis and differential expression for RNA-seq data
Bioconductor version: 3.0
Analysis of RNA-seq expression data or other similar kind of data. Exploratory plots to evualuate saturation, count distribution, expression per chromosome, type of detected features, features length, etc. Differential expression between two experimental conditions with no parametric assumptions.
Author: Sonia Tarazona, Pedro Furio-Tari, Alberto Ferrer and Ana Conesa
Maintainer: Sonia Tarazona <starazona at cipf.es>
Citation (from within R,
enter citation("NOISeq")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("NOISeq")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("NOISeq")
| R Script | NOISeq User's Guide | |
| QCreport.pdf | ||
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | DifferentialExpression, RNASeq, Sequencing, Software, Visualization |
| Version | 2.8.0 |
| In Bioconductor since | BioC 2.11 (R-2.15) |
| License | Artistic-2.0 |
| Depends | R (>= 2.13.0), methods, Biobase(>= 2.13.11), splines (>= 3.0.1) |
| Imports | |
| LinkingTo | |
| Suggests | |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | metaSeq |
| Imports Me | metaseqR |
| Suggests Me | compcodeR |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | NOISeq_2.8.0.tar.gz |
| Windows Binary | NOISeq_2.8.0.zip |
| Mac OS X 10.6 (Snow Leopard) | NOISeq_2.8.0.tgz |
| Mac OS X 10.9 (Mavericks) | NOISeq_2.8.0.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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