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Fast lasso-based isoform prediction as a flow problem

Bioconductor version: Release (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>

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PDF R Script FlipFlop: Fast Lasso-based Isoform Prediction as a Flow Problem
PDF   Reference Manual
Text   NEWS


biocViews AlternativeSplicing, RNASeq, RNASeqData, Regression, Software
Version 1.6.0
In Bioconductor since BioC 2.13 (R-3.0) (1.5 years)
License GPL-3
Depends R (>= 2.10.0)
Imports methods, Matrix, IRanges, GenomicRanges, parallel
Suggests GenomicFeatures
SystemRequirements GNU make
Depends On Me
Imports Me
Suggests Me
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