314 related articles for article (PubMed ID: 36171387)
1. Metagenome analysis using the Kraken software suite.
Lu J; Rincon N; Wood DE; Breitwieser FP; Pockrandt C; Langmead B; Salzberg SL; Steinegger M
Nat Protoc; 2022 Dec; 17(12):2815-2839. PubMed ID: 36171387
[TBL] [Abstract][Full Text] [Related]
2. Microbial community analysis using high-throughput sequencing technology: a beginner's guide for microbiologists.
Jo J; Oh J; Park C
J Microbiol; 2020 Mar; 58(3):176-192. PubMed ID: 32108314
[TBL] [Abstract][Full Text] [Related]
3. 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]
4. Kraken: ultrafast metagenomic sequence classification using exact alignments.
Wood DE; Salzberg SL
Genome Biol; 2014 Mar; 15(3):R46. PubMed ID: 24580807
[TBL] [Abstract][Full Text] [Related]
5. Scalable metagenomics alignment research tool (SMART): a scalable, rapid, and complete search heuristic for the classification of metagenomic sequences from complex sequence populations.
Lee AY; Lee CS; Van Gelder RN
BMC Bioinformatics; 2016 Jul; 17():292. PubMed ID: 27465705
[TBL] [Abstract][Full Text] [Related]
6. Practical considerations for sampling and data analysis in contemporary metagenomics-based environmental studies.
Staley C; Sadowsky MJ
J Microbiol Methods; 2018 Nov; 154():14-18. PubMed ID: 30287354
[TBL] [Abstract][Full Text] [Related]
7. ViraPipe: scalable parallel pipeline for viral metagenome analysis from next generation sequencing reads.
Maarala AI; Bzhalava Z; Dillner J; Heljanko K; Bzhalava D
Bioinformatics; 2018 Mar; 34(6):928-935. PubMed ID: 29106455
[TBL] [Abstract][Full Text] [Related]
8. A practical guide to amplicon and metagenomic analysis of microbiome data.
Liu YX; Qin Y; Chen T; Lu M; Qian X; Guo X; Bai Y
Protein Cell; 2021 May; 12(5):315-330. PubMed ID: 32394199
[TBL] [Abstract][Full Text] [Related]
9. MinION™ nanopore sequencing of environmental metagenomes: a synthetic approach.
Brown BL; Watson M; Minot SS; Rivera MC; Franklin RB
Gigascience; 2017 Mar; 6(3):1-10. PubMed ID: 28327976
[TBL] [Abstract][Full Text] [Related]
10. Estimating the total genome length of a metagenomic sample using k-mers.
Hua K; Zhang X
BMC Genomics; 2019 Apr; 20(Suppl 2):183. PubMed ID: 30967110
[TBL] [Abstract][Full Text] [Related]
11. Recovery and Analysis of Long-Read Metagenome-Assembled Genomes.
Arumugam K; Bessarab I; Haryono MAS; Williams RBH
Methods Mol Biol; 2023; 2649():235-259. PubMed ID: 37258866
[TBL] [Abstract][Full Text] [Related]
12. UltraSEQ, a Universal Bioinformatic Platform for Information-Based Clinical Metagenomics and Beyond.
Gemler BT; Mukherjee C; Howland C; Fullerton PA; Spurbeck RR; Catlin LA; Smith A; Minard-Smith AT; Bartling C
Microbiol Spectr; 2023 Jun; 11(3):e0416022. PubMed ID: 37039637
[TBL] [Abstract][Full Text] [Related]
13. Metagenomic approaches in microbial ecology: an update on whole-genome and marker gene sequencing analyses.
Pérez-Cobas AE; Gomez-Valero L; Buchrieser C
Microb Genom; 2020 Aug; 6(8):. PubMed ID: 32706331
[TBL] [Abstract][Full Text] [Related]
14. Re-purposing software for functional characterization of the microbiome.
Gardiner LJ; Haiminen N; Utro F; Parida L; Seabolt E; Krishna R; Kaufman JH
Microbiome; 2021 Jan; 9(1):4. PubMed ID: 33422152
[TBL] [Abstract][Full Text] [Related]
15. Exploiting topic modeling to boost metagenomic reads binning.
Zhang R; Cheng Z; Guan J; Zhou S
BMC Bioinformatics; 2015; 16 Suppl 5(Suppl 5):S2. PubMed ID: 25859745
[TBL] [Abstract][Full Text] [Related]
16. MetCap: a bioinformatics probe design pipeline for large-scale targeted metagenomics.
Kushwaha SK; Manoharan L; Meerupati T; Hedlund K; Ahrén D
BMC Bioinformatics; 2015 Feb; 16(1):65. PubMed ID: 25880302
[TBL] [Abstract][Full Text] [Related]
17. A Comparison of Two DNA Metagenomic Bioinformatic Pipelines While Evaluating the Microbial Diversity in Feces of Tanzanian Small Holder Dairy Cattle.
Kibegwa FM; Bett RC; Gachuiri CK; Stomeo F; Mujibi FD
Biomed Res Int; 2020; 2020():2348560. PubMed ID: 32382536
[TBL] [Abstract][Full Text] [Related]
18. Ultrafast and accurate 16S rRNA microbial community analysis using Kraken 2.
Lu J; Salzberg SL
Microbiome; 2020 Aug; 8(1):124. PubMed ID: 32859275
[TBL] [Abstract][Full Text] [Related]
19. LRTK: a platform agnostic toolkit for linked-read analysis of both human genome and metagenome.
Yang C; Zhang Z; Huang Y; Xie X; Liao H; Xiao J; Veldsman WP; Yin K; Fang X; Zhang L
Gigascience; 2024 Jan; 13():. PubMed ID: 38869148
[TBL] [Abstract][Full Text] [Related]
20. Strain-level metagenomic assignment and compositional estimation for long reads with MetaMaps.
Dilthey AT; Jain C; Koren S; Phillippy AM
Nat Commun; 2019 Jul; 10(1):3066. PubMed ID: 31296857
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]