A New Algorithm for DNA Sequence Assembly, Journal of Computational Biology, vol.2, issue.2, pp.291-306, 1995. ,
DOI : 10.1089/cmb.1995.2.291
Full-length transcriptome assembly from RNA-Seq data without a reference genome, Nature Biotechnology, vol.30, issue.7, pp.644-652, 2011. ,
DOI : 10.1101/GR.229202. ARTICLE PUBLISHED ONLINE BEFORE MARCH 2002
Meta-IDBA: a de Novo assembler for metagenomic data, Bioinformatics, vol.27, issue.13, pp.94-101, 2011. ,
DOI : 10.1093/bioinformatics/btr216
Identifying SNPs without a Reference Genome by Comparing Raw Reads, String Processing and Information Retrieval, pp.147-158 ,
DOI : 10.1007/978-3-642-16321-0_14
URL : https://hal.archives-ouvertes.fr/inria-00514887
De novo assembly and genotyping of variants using colored de Bruijn graphs, Nature Genetics, vol.44, issue.2, pp.226-232, 2012. ,
DOI : 10.1016/0198-8859(91)90078-N
KISSPLICE: de-novo calling alternative splicing events from RNA-seq data, BMC Bioinformatics, vol.201213, issue.13 6, pp.1471-2105 ,
URL : https://hal.archives-ouvertes.fr/hal-00784407
De novo assembly of human genomes with massively parallel short read sequencing, Genome Research, vol.20, issue.2, p.265, 2010. ,
DOI : 10.1101/gr.097261.109
ABySS: A parallel assembler for short read sequence data, Genome Research, vol.19, issue.6, pp.1117-1123, 2009. ,
DOI : 10.1101/gr.089532.108
Succinct data structures for assembling large genomes, Bioinformatics, vol.27, issue.4, p.479, 2011. ,
DOI : 10.1093/bioinformatics/btq697
Targeted Assembly of Short Sequence Reads, PLoS ONE, vol.28, issue.5, p.19816, 2011. ,
DOI : 10.1371/journal.pone.0019816.t001
Mapsembler, targeted and micro assembly of large NGS datasets on a desktop computer, BMC Bioinformatics, vol.13, issue.1, p.48, 2012. ,
DOI : 10.1186/gb-2011-12-1-r6
URL : https://hal.archives-ouvertes.fr/hal-00784408
Exploiting sparseness in de novo genome assembly, BMC Bioinformatics, vol.13, issue.Suppl 6 ,
DOI : 10.1093/bioinformatics/btr319
Scaling metagenome sequence assembly with probabilistic de Bruijn graphs Arxiv preprint arXiv:1112, 2011. ,
DOI : 10.1073/pnas.1121464109
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3421212
Less hashing, same performance: Building a better Bloom filter, Algorithms?, vol.4168, pp.456-467, 2006. ,
Assembly algorithms for next-generation sequencing data, Genomics, vol.95, issue.6, pp.315-327 ,
DOI : 10.1016/j.ygeno.2010.03.001
Localized Genome Assembly from Reads to Scaffolds: Practical Traversal of the Paired String Graph, Algo Bioinformatics, vol.18, issue.5, pp.39-48, 2011. ,
DOI : 10.1101/gr.074492.107
URL : https://hal.archives-ouvertes.fr/inria-00637535
Assembly complexity of prokaryotic genomes using short reads, BMC Bioinformatics, vol.11, issue.1, p.21, 2010. ,
DOI : 10.1186/1471-2105-11-21
A fast, lock-free approach for efficient parallel counting of occurrences of k-mers, Bioinformatics, vol.27, issue.6, pp.764-770, 2011. ,
DOI : 10.1093/bioinformatics/btr011
DSK: k-mer counting with very low memory usage, Bioinformatics, vol.29, issue.5, pp.652-653 ,
DOI : 10.1093/bioinformatics/btt020
URL : https://hal.archives-ouvertes.fr/hal-00778473
GASSST: global alignment short sequence search tool, Bioinformatics, vol.26, issue.20, p.2534 ,
DOI : 10.1093/bioinformatics/btq485
URL : https://hal.archives-ouvertes.fr/hal-00531499
GAGE: A critical evaluation of genome assemblies and assembly algorithms, Genome Research, vol.22, issue.3 ,
DOI : 10.1101/gr.131383.111
The Bloomier filter: an efficient data structure for static support lookup tables, Proceedings of the Fifteenth Annual ACM-SIAM Symposium on Discrete Algorithms, pp.30-39, 2004. ,
Succinct de Bruijn Graphs, In Algorithms in Bioinformatics Lecture Notes in Computer Science, vol.7534, issue.2012, pp.225-235 ,
DOI : 10.1007/978-3-642-33122-0_18