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Paper submited: http://arxiv.org/abs/1605.08319 Indexing billions kmers with frugal computation time and memory fingerprint + applications examples

I defended my thesis habilitation on january 25, 2016. The jury was: Hélène Touzet –Reviewer –Research Director, Inria Lille Sophie Schbath – Reviewer –Research Director, INRA, Jouy-en-Josas Gunnar Klau – Reviewer – Professor, CWI Amsterdam Alain Viari – Inria Lyon – Research … Continuer la lecture →

Je soutiens publiquement mon HDR le lundi 25 janvier. C’est à l’IRISA/Inria, en salle Métivier à 14h. Soyez les bienvenus.  

A new discoSnp++ release is available. http://colibread.inria.fr/software/discosnp/ Existing features in a few words Detect SNPs and indels from raw read set(s), without the need of a reference genome. Provides genotyping and ranking Generates a fasta file of variant predictions containing … Continuer la lecture →

Björn Grüning developped a  Galaxy Docker repository for metagenomics including commet : https://github.com/bgruening/galaxy-metagenomics

First formal proposal analysing the problem of mapping short reads on a de Bruijn graph: complexity analysis, heuristic algorithm and test results here: http://arxiv.org/abs/1505.04911

Information and download: DiscoSnp++ page

The discoSnp paper will soon be published in Nucleic Acid Research. PDF proofs are already available from the discoSnp home page. discoSnp

We’re happy to announce that commet will soon be presented at the bibm 2014 conference.