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KISSPLICE: de-novo calling alternative splicing events from RNA-seq data

Archive ouverte | Sacomoto, Gustavo | CCSD

International audience. In this paper, we address the problem of identifying and quantifying polymorphisms in RNA-seq data when no reference genome is available, without assembling the full transcripts. Based on the...

Colib’read on galaxy: a tools suite dedicated to biological information extraction from raw NGS reads

Archive ouverte | Le Bras, Yvan | CCSD

International audience. Background: With next-generation sequencing (NGS) technologies, the life sciences face a deluge of raw data.Classical analysis processes for such data often begin with an assembly step, needi...

Navigating in a Sea of Repeats in RNA-seq without Drowning

Archive ouverte | Sacomoto, Gustavo | CCSD

International audience. The main challenge in de novo assembly of NGS data is certainly to deal with repeats that are longer than the reads. This is particularly true for RNA-seq data, since coverage information can...

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