Critical assessment of metagenome interpretation—a benchmark of metagenomics software A Sczyrba, P Hofmann, P Belmann, D Koslicki, S Janssen, J Dröge, ... Nature methods 14 (11), 1063-1071, 2017 | 761 | 2017 |
Computational pan-genomics: status, promises and challenges Briefings in bioinformatics 19 (1), 118-135, 2018 | 341 | 2018 |
Critical assessment of metagenome interpretation: the second round of challenges F Meyer, A Fritz, ZL Deng, D Koslicki, TR Lesker, A Gurevich, G Robertson, ... Nature methods 19 (4), 429-440, 2022 | 217 | 2022 |
KIS SPLICE: de-novo calling alternative splicing events from RNA-seq data GAT Sacomoto, J Kielbassa, R Chikhi, R Uricaru, P Antoniou, MF Sagot, ... BMC bioinformatics 13, 1-12, 2012 | 129 | 2012 |
Reference-free detection of isolated SNPs R Uricaru, G Rizk, V Lacroix, E Quillery, O Plantard, R Chikhi, C Lemaitre, ... Nucleic acids research 43 (2), e11-e11, 2015 | 117 | 2015 |
Multiple comparative metagenomics using multiset k-mer counting G Benoit, P Peterlongo, M Mariadassou, E Drezen, S Schbath, D Lavenier, ... PeerJ Computer Science 2, e94, 2016 | 115 | 2016 |
Read mapping on de Bruijn graphs A Limasset, B Cazaux, E Rivals, P Peterlongo BMC bioinformatics 17, 1-12, 2016 | 103 | 2016 |
SNP discovery and genetic mapping using genotyping by sequencing of whole genome genomic DNA from a pea RIL population G Boutet, S Alves Carvalho, M Falque, P Peterlongo, E Lhuillier, ... BMC genomics 17, 1-14, 2016 | 102 | 2016 |
Fast and scalable minimal perfect hashing for massive key sets A Limasset, G Rizk, R Chikhi, P Peterlongo arXiv preprint arXiv:1702.03154, 2017 | 101 | 2017 |
GATB: genome assembly & analysis tool box E Drezen, G Rizk, R Chikhi, C Deltel, C Lemaitre, P Peterlongo, ... Bioinformatics 30 (20), 2959-2961, 2014 | 95 | 2014 |
Compareads: comparing huge metagenomic experiments N Maillet, C Lemaitre, R Chikhi, D Lavenier, P Peterlongo BMC bioinformatics 13, 1-10, 2012 | 76 | 2012 |
Genomic evidence for global ocean plankton biogeography shaped by large-scale current systems DJ Richter, R Watteaux, T Vannier, J Leconte, P Frémont, G Reygondeau, ... Elife 11, e78129, 2022 | 74 | 2022 |
Cytosine methylation of mature microRNAs inhibits their functions and is associated with poor prognosis in glioblastoma multiforme M Cheray, A Etcheverry, C Jacques, R Pacaud, G Bougras-Cartron, ... Molecular cancer 19, 1-16, 2020 | 72 | 2020 |
COMMET: comparing and combining multiple metagenomic datasets N Maillet, G Collet, T Vannier, D Lavenier, P Peterlongo 2014 IEEE international conference on bioinformatics and biomedicine (BIBM …, 2014 | 61 | 2014 |
Identifying SNPs without a reference genome by comparing raw reads P Peterlongo, N Schnel, N Pisanti, MF Sagot, V Lacroix String Processing and Information Retrieval: 17th International Symposium …, 2010 | 57 | 2010 |
Mapsembler, targeted and micro assembly of large NGS datasets on a desktop computer P Peterlongo, R Chikhi BMC bioinformatics 13, 1-14, 2012 | 55 | 2012 |
Toward perfect reads: self-correction of short reads via mapping on de Bruijn graphs A Limasset, JF Flot, P Peterlongo Bioinformatics 36 (5), 1374-1381, 2020 | 44 | 2020 |
DiscoSnp++: de novo detection of small variants from raw unassembled read set(s) P Peterlongo, C Riou, E Drezen, C Lemaitre BioRxiv, 209965, 2017 | 40 | 2017 |
Mutations and genomic islands can explain the strain dependency of sugar utilization in 21 strains of Propionibacterium freudenreichii V Loux, M Mariadassou, S Almeida, H Chiapello, A Hammani, J Buratti, ... BMC genomics 16, 1-19, 2015 | 40 | 2015 |
A first approach to finding common motifs with gaps CS Iliopoulos, J McHugh, P Peterlongo, N Pisanti, W Rytter, MF Sagot International Journal of Foundations of Computer Science 16 (06), 1145-1154, 2005 | 37 | 2005 |