| GReEn: a tool for efficient compression of genome resequencing data AJ Pinho, D Pratas, SP Garcia Nucleic acids research 40 (4), e27-e27, 2012 | 136 | 2012 |
| MFCompress: a compression tool for FASTA and multi-FASTA data AJ Pinho, D Pratas Bioinformatics 30 (1), 117-118, 2014 | 119 | 2014 |
| A survey on data compression methods for biological sequences M Hosseini, D Pratas, AJ Pinho Information 7 (4), 56, 2016 | 97 | 2016 |
| Efficient compression of genomic sequences D Pratas, AJ Pinho, PJSG Ferreira 2016 Data compression conference (DCC), 231-240, 2016 | 63 | 2016 |
| Three minimal sequences found in Ebola virus genomes and absent from human DNA RM Silva, D Pratas, L Castro, AJ Pinho, PJSG Ferreira Bioinformatics 31 (15), 2421-2425, 2015 | 53 | 2015 |
| Bacteria DNA sequence compression using a mixture of finite-context models AJ Pinho, D Pratas, PJSG Ferreira 2011 IEEE Statistical Signal Processing Workshop (SSP), 125-128, 2011 | 49 | 2011 |
| The haplotype-resolved chromosome pairs of a heterozygous diploid African cassava cultivar reveal novel pan-genome and allele-specific transcriptome features W Qi, YW Lim, A Patrignani, P Schläpfer, A Bratus-Neuenschwander, ... GigaScience 11, giac028, 2022 | 35 | 2022 |
| An alignment-free method to find and visualise rearrangements between pairs of DNA sequences D Pratas, RM Silva, AJ Pinho, PJSG Ferreira Scientific reports 5 (1), 10203, 2015 | 34 | 2015 |
| Efficient DNA sequence compression with neural networks M Silva, D Pratas, AJ Pinho GigaScience 9 (11), giaa119, 2020 | 33 | 2020 |
| Cryfa: a secure encryption tool for genomic data M Hosseini, D Pratas, AJ Pinho Bioinformatics 35 (1), 146-148, 2019 | 32 | 2019 |
| XS: a FASTQ read simulator D Pratas, AJ Pinho, JMOS Rodrigues BMC research notes 7 (1), 1-7, 2014 | 31 | 2014 |
| The landscape of persistent human DNA viruses in femoral bone M Toppinen, D Pratas, E Väisänen, M Söderlund-Venermo, K Hedman, ... Forensic Science International: Genetics 48, 102353, 2020 | 29 | 2020 |
| Authorship attribution using relative compression AJ Pinho, D Pratas, PJSG Ferreira 2016 Data Compression Conference (DCC), 329-338, 2016 | 28 | 2016 |
| A hybrid pipeline for reconstruction and analysis of viral genomes at multi-organ level D Pratas, M Toppinen, L Pyöriä, K Hedman, A Sajantila, MF Perdomo GigaScience 9 (8), giaa086, 2020 | 26 | 2020 |
| Compressing the human genome using exclusively Markov models D Pratas, AJ Pinho 5th International Conference on Practical Applications of Computational …, 2011 | 26 | 2011 |
| Substitutional tolerant Markov models for relative compression of DNA sequences D Pratas, M Hosseini, AJ Pinho 11th International Conference on Practical Applications of Computational …, 2017 | 25 | 2017 |
| Unmasking the tissue-resident eukaryotic DNA virome in humans L Pyöriä, D Pratas, M Toppinen, K Hedman, A Sajantila, MF Perdomo Nucleic Acids Research, gkad199, 2023 | 23 | 2023 |
| GeCo2: An optimized tool for lossless compression and analysis of DNA sequences D Pratas, M Hosseini, AJ Pinho Practical Applications of Computational Biology and Bioinformatics, 13th …, 2020 | 23 | 2020 |
| Persistent minimal sequences of SARS-CoV-2 D Pratas, JM Silva Bioinformatics 36 (21), 5129-5132, 2020 | 22 | 2020 |
| On the approximation of the Kolmogorov complexity for DNA sequences D Pratas, AJ Pinho Pattern Recognition and Image Analysis: 8th Iberian Conference, IbPRIA 2017 …, 2017 | 22 | 2017 |
