Flux
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Application data |
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| Biological application domain(s) | RNA-Seq |
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| Principal bioinformatics method(s) | Modelling and simulation |
| Maintained? | Maybe |
Summary: FluxCapacitor s a computer program to predict splice form abundancies from reads of an RNA-seq experiment. FluxSimulator can generate simulated data for testing RNA-seq pipelines
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The FluxSimulator is the part of the FLUX project that aims at providing an in silico reproduction of the experimental pipelines for RNA-Seq, adopting a minimal set of parameters. Corresponding models were established after analyzing RNA-Seq experiments from different cell types, sample preparation protocols and sequencing platforms. The first step of the FLUX project is-in fact-a transcriptome simulator. Subsequently, common sources of systematic bias in the abundance and distribution of produced reads are mimicked-whether they incur during library construction, or, in the sequencing process. The FluxSimulator provides a flexible base to design benchmark experiments based on the new sequencing technologies, as for instance abundance predictions of the FluxCapacitor.
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