To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("savR")
In most cases, you don't need to download the package archive at all.
savR
Parse and analyze Illumina SAV files
Bioconductor version: 3.0
Parse Illumina Sequence Analysis Viewer (SAV) files, access data, and generate QC plots.
Author: R. Brent Calder
Maintainer: R. Brent Calder <brent.calder at einstein.yu.edu>
Citation (from within R,
enter citation("savR")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("savR")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("savR")
| R Script | Using savR | |
| Reference Manual |
Details
| biocViews | Sequencing, Software |
| Version | 1.4.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) |
| License | AGPL-3 |
| Depends | ggplot2 |
| Imports | methods, reshape2, scales, gridExtra, XML |
| LinkingTo | |
| Suggests | Cairo |
| SystemRequirements | |
| Enhances | |
| URL | https://github.com/bcalder/savR |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | savR_1.4.0.tar.gz |
| Windows Binary | savR_1.4.0.zip |
| Mac OS X 10.6 (Snow Leopard) | savR_1.4.0.tgz |
| Mac OS X 10.9 (Mavericks) | savR_1.4.0.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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