Author's posts
Simka presentation
Simka (de novo metagenomics comparisons) was presented during the “Pasteur Metagenomics Summer School“. Check the Pierre’s presentation page.
Permanent link to this article: https://team.inria.fr/genscale/simka-presentation/
GATB programming day – Fall 2016
Are you interested in learning how to create high-performance NGS data analysis tools? Are you familiar with C++ programming and can you speak English? If so, Ok, well done ;). This event is for you: The GATB programming day: learn the basics of high-performance NGS data processing using the GATB-Corelibrary. This second edition of our GATB Tutorial is scheduled …
Permanent link to this article: https://team.inria.fr/genscale/gatb-programming-day-fall-2016/
Workshop colib’read – November 7,8 2016
The colib’read group (http://colibread.inria.fr/) organises a workshop which aim is to present tools and results obtained for “calling biological information from raw reads”. The tools developed by the group are efficient both in terms of memory and computing time. Most of these tools are reference-free and assembly-free, and thus give the possibility to analyse reads …
Permanent link to this article: https://team.inria.fr/genscale/workshop-colibread-november-78-2016/
discoSnp++2.2.0 released
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 a micro-assembly of the variant left and rigth neighbors Generates a VCF of predicted variants …
Permanent link to this article: https://team.inria.fr/genscale/discosnp2-2-0-released/
Galaxy Docker repository for metagenomics
Björn Grüning developped a Galaxy Docker repository for metagenomics including commet : https://github.com/bgruening/galaxy-metagenomics
Permanent link to this article: https://team.inria.fr/genscale/galaxy-docker-repository-for-metagenomics/
B-GREAT: map short reads on de-bruijn graph
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
Permanent link to this article: https://team.inria.fr/genscale/b-great-map-short-reads-on-de-bruijn-graph/
DiscoSnp++ now genotypes results and provides a VCF file
From version 2.1.2, discoSnp++ includes several new features as the usage of paired reads, the creation of a genotype or the production of a VCF with or without the use of a reference genome. Info and downloads : discoSnp++ page
Permanent link to this article: https://team.inria.fr/genscale/discosnp-now-genotypes-results-and-provides-a-vcf-file/
DiscoSnp becomes DiscoSnp++. Detect SNPs and more
Information and download: DiscoSnp++ page
Permanent link to this article: https://team.inria.fr/genscale/discosnp-becomes-discosnp-detect-snps-and-more/
Paper discoSnp published in NAR
The discoSnp paper will soon be published in Nucleic Acid Research. PDF proofs are already available from the discoSnp home page. discoSnp
Permanent link to this article: https://team.inria.fr/genscale/paper-discosnp-published-in-nar/
Participation à l’opération Science en Marche
Les équipes du groupe Symbiose (Dyliss, Genouest et Genscale) participeront à l’opération Sciences en Marche lors du trajet Rennes–>Vitré du 10 octobre 2014. Plus d’infos ici:
Permanent link to this article: https://team.inria.fr/genscale/participation-a-loperation-science-en-marche/