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Designing efficient randstrobes for sequence similarity analyses.
Bioinformatics. 2024 Mar 29;40(4):btae187. doi: 10.1093/bioinformatics/btae187.
Bioinformatics. 2024.
PMID: 38579261
Free PMC article.
Fulgor: a fast and compact k-mer index for large-scale matching and color queries.
Fan J, Khan J, Singh NP, Pibiri GE, Patro R.
Fan J, et al. Among authors: pibiri ge.
Algorithms Mol Biol. 2024 Jan 22;19(1):3. doi: 10.1186/s13015-024-00251-9.
Algorithms Mol Biol. 2024.
PMID: 38254124
Free PMC article.
Item in Clipboard
Meta-colored compacted de Bruijn graphs.
Pibiri GE, Fan J, Patro R.
Pibiri GE, et al.
bioRxiv [Preprint]. 2023 Nov 1:2023.07.21.550101. doi: 10.1101/2023.07.21.550101.
bioRxiv. 2023.
PMID: 37546988
Free PMC article.
Preprint.
Item in Clipboard
Locality-preserving minimal perfect hashing of k-mers.
Pibiri GE, Shibuya Y, Limasset A.
Pibiri GE, et al.
Bioinformatics. 2023 Jun 30;39(Suppl 1):i534-i543. doi: 10.1093/bioinformatics/btad219.
Bioinformatics. 2023.
PMID: 37387137
Free PMC article.
Item in Clipboard
On weighted k-mer dictionaries.
Pibiri GE.
Pibiri GE.
Algorithms Mol Biol. 2023 Jun 17;18(1):3. doi: 10.1186/s13015-023-00226-2.
Algorithms Mol Biol. 2023.
PMID: 37328897
Free PMC article.
Item in Clipboard
Matchtigs: minimum plain text representation of k-mer sets.
Schmidt S, Khan S, Alanko JN, Pibiri GE, Tomescu AI.
Schmidt S, et al. Among authors: pibiri ge.
Genome Biol. 2023 Jun 9;24(1):136. doi: 10.1186/s13059-023-02968-z.
Genome Biol. 2023.
PMID: 37296461
Free PMC article.
Item in Clipboard
Fulgor: A fast and compact k-mer index for large-scale matching and color queries.
Fan J, Singh NP, Khan J, Pibiri GE, Patro R.
Fan J, et al. Among authors: pibiri ge.
bioRxiv [Preprint]. 2023 May 20:2023.05.09.539895. doi: 10.1101/2023.05.09.539895.
bioRxiv. 2023.
PMID: 37214944
Free PMC article.
Updated.
Preprint.
Item in Clipboard
Sparse and skew hashing of K-mers.
Pibiri GE.
Pibiri GE.
Bioinformatics. 2022 Jun 24;38(Suppl 1):i185-i194. doi: 10.1093/bioinformatics/btac245.
Bioinformatics. 2022.
PMID: 35758794
Free PMC article.
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