Search details
1.
Efficient taxa identification using a pangenome index.
Genome Res
; 33(7): 1069-1077, 2023 07.
Article
in English
| MEDLINE | ID: mdl-37258301
2.
MEGARes and AMR++, v3.0: an updated comprehensive database of antimicrobial resistance determinants and an improved software pipeline for classification using high-throughput sequencing.
Nucleic Acids Res
; 51(D1): D744-D752, 2023 01 06.
Article
in English
| MEDLINE | ID: mdl-36382407
3.
Data structures based on k-mers for querying large collections of sequencing data sets.
Genome Res
; 31(1): 1-12, 2021 01.
Article
in English
| MEDLINE | ID: mdl-33328168
4.
Towards routine employment of computational tools for antimicrobial resistance determination via high-throughput sequencing.
Brief Bioinform
; 23(2)2022 03 10.
Article
in English
| MEDLINE | ID: mdl-35212354
5.
µ- PBWT: a lightweight r-indexing of the PBWT for storing and querying UK Biobank data.
Bioinformatics
; 39(9)2023 09 02.
Article
in English
| MEDLINE | ID: mdl-37688560
6.
Syotti: scalable bait design for DNA enrichment.
Bioinformatics
; 38(Suppl 1): i177-i184, 2022 06 24.
Article
in English
| MEDLINE | ID: mdl-35758776
7.
Succinct dynamic de Bruijn graphs.
Bioinformatics
; 37(14): 1946-1952, 2021 08 04.
Article
in English
| MEDLINE | ID: mdl-32462192
8.
Metagenome SNP calling via read-colored de Bruijn graphs.
Bioinformatics
; 36(22-23): 5275-5281, 2021 04 01.
Article
in English
| MEDLINE | ID: mdl-32049324
9.
Computational graph pangenomics: a tutorial on data structures and their applications.
Nat Comput
; 21(1): 81-108, 2022 Mar.
Article
in English
| MEDLINE | ID: mdl-36969737
10.
MEGARes 2.0: a database for classification of antimicrobial drug, biocide and metal resistance determinants in metagenomic sequence data.
Nucleic Acids Res
; 48(D1): D561-D569, 2020 01 08.
Article
in English
| MEDLINE | ID: mdl-31722416
11.
Fast and exact quantification of motif occurrences in biological sequences.
BMC Bioinformatics
; 22(1): 445, 2021 Sep 18.
Article
in English
| MEDLINE | ID: mdl-34537012
12.
Portable nanopore analytics: are we there yet?
Bioinformatics
; 36(16): 4399-4405, 2020 08 15.
Article
in English
| MEDLINE | ID: mdl-32277811
13.
Fast and accurate correction of optical mapping data via spaced seeds.
Bioinformatics
; 36(3): 682-689, 2020 02 01.
Article
in English
| MEDLINE | ID: mdl-31504206
14.
Building large updatable colored de Bruijn graphs via merging.
Bioinformatics
; 35(14): i51-i60, 2019 07 15.
Article
in English
| MEDLINE | ID: mdl-31510647
15.
Aligning optical maps to de Bruijn graphs.
Bioinformatics
; 35(18): 3250-3256, 2019 09 15.
Article
in English
| MEDLINE | ID: mdl-30698651
16.
Identification of co-evolving temporal networks.
BMC Genomics
; 20(Suppl 6): 434, 2019 Jun 13.
Article
in English
| MEDLINE | ID: mdl-31189471
17.
Practical dynamic de Bruijn graphs.
Bioinformatics
; 34(24): 4189-4195, 2018 12 15.
Article
in English
| MEDLINE | ID: mdl-29939217
18.
Genomic Comparison Reveals Natural Occurrence of Clinically Relevant Multidrug-Resistant Extended-Spectrum-ß-Lactamase-Producing Escherichia coli Strains.
Appl Environ Microbiol
; 85(13)2019 07 01.
Article
in English
| MEDLINE | ID: mdl-31053578
19.
MEGARes: an antimicrobial resistance database for high throughput sequencing.
Nucleic Acids Res
; 45(D1): D574-D580, 2017 01 04.
Article
in English
| MEDLINE | ID: mdl-27899569
20.
Succinct colored de Bruijn graphs.
Bioinformatics
; 33(20): 3181-3187, 2017 Oct 15.
Article
in English
| MEDLINE | ID: mdl-28200001