154 related articles for article (PubMed ID: 38664753)
1. Centrifuger: lossless compression of microbial genomes for efficient and accurate metagenomic sequence classification.
Song L; Langmead B
Genome Biol; 2024 Apr; 25(1):106. PubMed ID: 38664753
[TBL] [Abstract][Full Text] [Related]
2. Centrifuger: lossless compression of microbial genomes for efficient and accurate metagenomic sequence classification.
Song L; Langmead B
bioRxiv; 2023 Nov; ():. PubMed ID: 38014029
[TBL] [Abstract][Full Text] [Related]
3. MetaCRAM: an integrated pipeline for metagenomic taxonomy identification and compression.
Kim M; Zhang X; Ligo JG; Farnoud F; Veeravalli VV; Milenkovic O
BMC Bioinformatics; 2016 Feb; 17():94. PubMed ID: 26895947
[TBL] [Abstract][Full Text] [Related]
4. Centrifuge: rapid and sensitive classification of metagenomic sequences.
Kim D; Song L; Breitwieser FP; Salzberg SL
Genome Res; 2016 Dec; 26(12):1721-1729. PubMed ID: 27852649
[TBL] [Abstract][Full Text] [Related]
5. Large-scale compression of genomic sequence databases with the Burrows-Wheeler transform.
Cox AJ; Bauer MJ; Jakobi T; Rosone G
Bioinformatics; 2012 Jun; 28(11):1415-9. PubMed ID: 22556365
[TBL] [Abstract][Full Text] [Related]
6. Fast lossless compression via cascading Bloom filters.
Rozov R; Shamir R; Halperin E
BMC Bioinformatics; 2014; 15 Suppl 9(Suppl 9):S7. PubMed ID: 25252952
[TBL] [Abstract][Full Text] [Related]
7. A novel data structure to support ultra-fast taxonomic classification of metagenomic sequences with k-mer signatures.
Liu X; Yu Y; Liu J; Elliott CF; Qian C; Liu J
Bioinformatics; 2018 Jan; 34(1):171-178. PubMed ID: 29036588
[TBL] [Abstract][Full Text] [Related]
8. Distributed hybrid-indexing of compressed pan-genomes for scalable and fast sequence alignment.
Maarala AI; Arasalo O; Valenzuela D; Mäkinen V; Heljanko K
PLoS One; 2021; 16(8):e0255260. PubMed ID: 34343181
[TBL] [Abstract][Full Text] [Related]
9. GRASP2: fast and memory-efficient gene-centric assembly and homolog search for metagenomic sequencing data.
Zhong C; Yang Y; Yooseph S
BMC Bioinformatics; 2019 Jun; 20(Suppl 11):276. PubMed ID: 31167633
[TBL] [Abstract][Full Text] [Related]
10. A fast sequence assembly method based on compressed data structures.
Liang P; Zhang Y; Lin K; Hu J
Annu Int Conf IEEE Eng Med Biol Soc; 2014; 2014():326-9. PubMed ID: 25569963
[TBL] [Abstract][Full Text] [Related]
11. Metagenomic analysis through the extended Burrows-Wheeler transform.
Guerrini V; Louza FA; Rosone G
BMC Bioinformatics; 2020 Sep; 21(Suppl 8):299. PubMed ID: 32938362
[TBL] [Abstract][Full Text] [Related]
12. Cliffy: robust 16S rRNA classification based on a compressed LCA index.
Ahmed O; Boucher C; Langmead B
bioRxiv; 2024 May; ():. PubMed ID: 38854039
[TBL] [Abstract][Full Text] [Related]
13. Piphillin predicts metagenomic composition and dynamics from DADA2-corrected 16S rDNA sequences.
Narayan NR; Weinmaier T; Laserna-Mendieta EJ; Claesson MJ; Shanahan F; Dabbagh K; Iwai S; DeSantis TZ
BMC Genomics; 2020 Jan; 21(1):56. PubMed ID: 31952477
[TBL] [Abstract][Full Text] [Related]
14. An accurate and fast alignment-free method for profiling microbial communities.
Pham DT; Gao S; Phan V
J Bioinform Comput Biol; 2017 Jun; 15(3):1740001. PubMed ID: 28345370
[TBL] [Abstract][Full Text] [Related]
15. Efficient Construction of a Complete Index for Pan-Genomics Read Alignment.
Kuhnle A; Mun T; Boucher C; Gagie T; Langmead B; Manzini G
J Comput Biol; 2020 Apr; 27(4):500-513. PubMed ID: 32181684
[No Abstract] [Full Text] [Related]
16. Accurate and fast estimation of taxonomic profiles from metagenomic shotgun sequences.
Liu B; Gibbons T; Ghodsi M; Treangen T; Pop M
BMC Genomics; 2011; 12 Suppl 2(Suppl 2):S4. PubMed ID: 21989143
[TBL] [Abstract][Full Text] [Related]
17. Efficient de novo assembly of large genomes using compressed data structures.
Simpson JT; Durbin R
Genome Res; 2012 Mar; 22(3):549-56. PubMed ID: 22156294
[TBL] [Abstract][Full Text] [Related]
18. Light-weight reference-based compression of FASTQ data.
Zhang Y; Li L; Yang Y; Yang X; He S; Zhu Z
BMC Bioinformatics; 2015 Jun; 16(1):188. PubMed ID: 26051252
[TBL] [Abstract][Full Text] [Related]
19. CIndex: compressed indexes for fast retrieval of FASTQ files.
Huo H; Liu P; Wang C; Jiang H; Vitter JS
Bioinformatics; 2022 Jan; 38(2):335-343. PubMed ID: 34524416
[TBL] [Abstract][Full Text] [Related]
20. CLAST: CUDA implemented large-scale alignment search tool.
Yano M; Mori H; Akiyama Y; Yamada T; Kurokawa K
BMC Bioinformatics; 2014 Dec; 15(1):406. PubMed ID: 25495907
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
