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To install this package, start R and enter:
## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("flipflop")
In most cases, you don't need to download the package archive at all.
flipflop
Fast lasso-based isoform prediction as a flow problem
Bioconductor version: 3.1
Flipflop discovers which isoforms of a gene are expressed in a given sample together with their abundances, based on RNA-Seq read data. It takes an alignment file in SAM format as input. It can also discover transcripts from several samples simultaneously, increasing statistical power.
Author: Elsa Bernard, Laurent Jacob, Julien Mairal and Jean-Philippe Vert
Maintainer: Elsa Bernard <elsa.bernard at mines-paristech.fr>
Citation (from within R,
enter citation("flipflop")):
Installation
To install this package, start R and enter:
## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("flipflop")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("flipflop")
| R Script | FlipFlop: Fast Lasso-based Isoform Prediction as a Flow Problem | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | AlternativeSplicing, RNASeq, RNASeqData, Regression, Software |
| Version | 1.6.1 |
| In Bioconductor since | BioC 2.13 (R-3.0) (2 years) |
| License | GPL-3 |
| Depends | R (>= 2.10.0) |
| Imports | methods, Matrix, IRanges, GenomicRanges, parallel |
| LinkingTo | |
| Suggests | GenomicFeatures |
| SystemRequirements | GNU make |
| Enhances | |
| URL | http://cbio.ensmp.fr/flipflop |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | flipflop_1.6.1.tar.gz |
| Windows Binary | flipflop_1.6.1.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | flipflop_1.6.1.tgz |
| Mac OS X 10.9 (Mavericks) | flipflop_1.6.1.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/flipflop/tree/release-3.1 |
| Package Short Url | http://bioconductor.org/packages/flipflop/ |
| Package Downloads Report | Download Stats |
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