FlipFlop statistics

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Associated diseases

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FlipFlop specifications


Unique identifier OMICS_04028
Name FlipFlop
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data An alignment file
Input format SAM
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.18.0
Stability Stable
R(>=2.10.0), methods, parallel, IRanges, GenomicRanges, Matrix, GenomicFeatures
Maintained Yes


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  • person_outline Elsa Bernard <>

Publications for FlipFlop

FlipFlop in publications

PMCID: 5649079
PMID: 29075305
DOI: 10.1186/s12983-017-0234-9

[…] develops everted limb buds during embryogenesis. however, the molecular processes directing the evagination of epithelia are only poorly understood., here we show that the newly discovered genes tc-flipflop1 and tc-flipflop2 are involved in regulating the directional budding of appendages. rnai-knockdown of tc-flipflop results in a variety of phenotypic traits. most prominently, embryonic limb […]

PMCID: 5298713
PMID: 28085107
DOI: 10.3390/s17010140

[…] shifter fails to create precise quadrature signals due to the unequal amplitude and am-pm conversion (amplitude modulation to phase modulation conversion). the frequency divider uses a master-slave flipflop to divide a signal by a factor of two, and as the lo (local oscillator) oscillates at 2ω, it consumes extra power, and it may undergo a phase imbalance resulting from the deviation […]

PMCID: 5952954
PMID: 28069635
DOI: 10.1093/bib/bbw137

[…] the concepts proposed by rizzi et al. in the transcript prediction tool traphlor, and using simulated data demonstrated against two state-of-the-art transcript prediction tools stringtie [] and flipflop [] that using the information provided by exon chains can significantly improve the transcript prediction accuracy., however, with the high error rates of the third-generation sequencers […]

PMCID: 5493436
PMID: 28561736
DOI: 10.7554/eLife.26420.018

[…] during eye development also results in some defects. if loss of snf4a γ is induced in all cells by heat shock specifically in adults the brain neurons degenerate., together, this suggests that the flipflop tool works well to induce loss of function phenotypes in a conditional manner for genes in which suitable mimic insertions exist. this allows conditional deletion of genes in the adult fly., […]

PMCID: 4673975
PMID: 26338770
DOI: 10.1093/bioinformatics/btv488

[…] from short read rna-seq data, of which cufflinks () is the most widely used. other methods are stringtie (), scripture (), trinity (), oases (velvet) (), soap-denovo-trans (), ireckon (), class (), flipflop (), isolasso (), mitie (), trans-abyss (), augustus (), traph ()., algorithms are classified by whether they use an alignment to a reference genome sequence, or whether they assemble […]

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FlipFlop institution(s)
Mines ParisTech, Centre for Computational Biology, Fontainebleau, France; Institut Curie, Paris, France; INSERM U900, Paris, France; Laboratoire Biométrie et Biologie Evolutive, Université de Lyon, Université Lyon 1, CNRS, INRA, UMR5558, Villeurbanne, France; LEAR Project-Team, INRIA Grenoble Rhône Alpes, Montbonnot, France

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