| Nextflow enables reproducible computational workflows P Di Tommaso, M Chatzou, EW Floden, PP Barja, E Palumbo, ... Nature biotechnology 35 (4), 316-319, 2017 | 2720 | 2017 |
| The nf-core framework for community-curated bioinformatics pipelines PA Ewels, A Peltzer, S Fillinger, H Patel, J Alneberg, A Wilm, MU Garcia, ... Nature biotechnology 38 (3), 276-278, 2020 | 1555 | 2020 |
| T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension P Di Tommaso, S Moretti, I Xenarios, M Orobitg, A Montanyola, JM Chang, ... Nucleic acids research 39 (suppl_2), W13-W17, 2011 | 1249 | 2011 |
| TCS: a new multiple sequence alignment reliability measure to estimate alignment accuracy and improve phylogenetic tree reconstruction JM Chang, P Di Tommaso, C Notredame Molecular biology and evolution 31 (6), 1625-1637, 2014 | 217 | 2014 |
| AMPA: an automated web server for prediction of protein antimicrobial regions M Torrent, P Di Tommaso, D Pulido, MV Nogués, C Notredame, E Boix, ... Bioinformatics 28 (1), 130-131, 2012 | 175 | 2012 |
| The impact of Docker containers on the performance of genomic pipelines P Di Tommaso, E Palumbo, M Chatzou, P Prieto, ML Heuer, C Notredame PeerJ 3, e1273, 2015 | 172 | 2015 |
| Accurate multiple sequence alignment of transmembrane proteins with PSI-Coffee JM Chang, P Di Tommaso, JF Taly, C Notredame BMC bioinformatics 13, 1-7, 2012 | 137 | 2012 |
| Using the T-Coffee package to build multiple sequence alignments of protein, RNA, DNA sequences and 3D structures JF Taly, C Magis, G Bussotti, JM Chang, P Di Tommaso, I Erb, ... Nature protocols 6 (11), 1669-1682, 2011 | 114 | 2011 |
| T-Coffee: Tree-based consistency objective function for alignment evaluation C Magis, JF Taly, G Bussotti, JM Chang, P Di Tommaso, I Erb, ... Multiple Sequence Alignment Methods, 117-129, 2014 | 78 | 2014 |
| PSI/TM-Coffee: a web server for fast and accurate multiple sequence alignments of regular and transmembrane proteins using homology extension on reduced databases EW Floden, PD Tommaso, M Chatzou, C Magis, C Notredame, JM Chang Nucleic acids research 44 (W1), W339-W343, 2016 | 68 | 2016 |
| TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction JM Chang, P Di Tommaso, V Lefort, O Gascuel, C Notredame Nucleic acids research 43 (W1), W3-W6, 2015 | 56 | 2015 |
| Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud P Di Tommaso, M Orobitg, F Guirado, F Cores, T Espinosa, C Notredame Bioinformatics 26 (15), 1903-1904, 2010 | 41 | 2010 |
| Scalable workflows and reproducible data analysis for genomics F Strozzi, R Janssen, R Wurmus, MR Crusoe, G Githinji, P Di Tommaso, ... Evolutionary Genomics: Statistical and Computational Methods, 723-745, 2019 | 35 | 2019 |
| Large multiple sequence alignments with a root-to-leaf regressive method E Garriga, P Di Tommaso, C Magis, I Erb, L Mansouri, A Baltzis, ... Nature biotechnology 37 (12), 1466-1470, 2019 | 33 | 2019 |
| Workflows community summit 2022: A roadmap revolution RF da Silva, RM Badia, V Bala, D Bard, PT Bremer, I Buckley, ... arXiv preprint arXiv:2304.00019, 2023 | 28 | 2023 |
| Workflows community summit: Bringing the scientific workflows community together RF da Silva, H Casanova, K Chard, D Laney, D Ahn, S Jha, C Goble, ... arXiv preprint arXiv:2103.09181, 2021 | 24 | 2021 |
| Definition of visual processes in a language for expressing transitions P Bottoni, M De Marsico, P Di Tommaso, S Levialdi, D Ventriglia Journal of Visual Languages & Computing 15 (3-4), 211-242, 2004 | 19 | 2004 |
| Generalized bootstrap supports for phylogenetic analyses of protein sequences incorporating alignment uncertainty M Chatzou, EW Floden, P Di Tommaso, O Gascuel, C Notredame Systematic Biology 67 (6), 997-1009, 2018 | 16 | 2018 |
| Multiple sequence alignment computation using the t-coffee regressive algorithm implementation E Garriga, P Di Tommaso, C Magis, I Erb, L Mansouri, A Baltzis, E Floden, ... Multiple sequence alignment: Methods and protocols, 89-97, 2021 | 12 | 2021 |
| Incorporating alignment uncertainty into Felsenstein’s phylogenetic bootstrap to improve its reliability JM Chang, EW Floden, J Herrero, O Gascuel, P Di Tommaso, ... Bioinformatics 37 (11), 1506-1514, 2021 | 10 | 2021 |
Cedric NotredameCentre for Genomic Regulation, SpainVerified email at crg.eu
