128 related articles for article (PubMed ID: 26678073)
1. Accurate reconstruction of viral quasispecies spectra through improved estimation of strain richness.
Jayasundara D; Saeed I; Chang BC; Tang SL; Halgamuge SK
BMC Bioinformatics; 2015; 16 Suppl 18(Suppl 18):S3. PubMed ID: 26678073
[TBL] [Abstract][Full Text] [Related]
2. ViQuaS: an improved reconstruction pipeline for viral quasispecies spectra generated by next-generation sequencing.
Jayasundara D; Saeed I; Maheswararajah S; Chang BC; Tang SL; Halgamuge SK
Bioinformatics; 2015 Mar; 31(6):886-96. PubMed ID: 25398613
[TBL] [Abstract][Full Text] [Related]
3. Inferring viral quasispecies spectra from 454 pyrosequencing reads.
Astrovskaya I; Tork B; Mangul S; Westbrooks K; Măndoiu I; Balfe P; Zelikovsky A
BMC Bioinformatics; 2011; 12 Suppl 6(Suppl 6):S1. PubMed ID: 21989211
[TBL] [Abstract][Full Text] [Related]
4. Reconstruction of viral population structure from next-generation sequencing data using multicommodity flows.
Skums P; Mancuso N; Artyomenko A; Tork B; Mandoiu I; Khudyakov Y; Zelikovsky A
BMC Bioinformatics; 2013; 14 Suppl 9(Suppl 9):S2. PubMed ID: 23902469
[TBL] [Abstract][Full Text] [Related]
5. Improving contig binning of metagenomic data using [Formula: see text] oligonucleotide frequency dissimilarity.
Wang Y; Wang K; Lu YY; Sun F
BMC Bioinformatics; 2017 Sep; 18(1):425. PubMed ID: 28931373
[TBL] [Abstract][Full Text] [Related]
6. MetaProb: accurate metagenomic reads binning based on probabilistic sequence signatures.
Girotto S; Pizzi C; Comin M
Bioinformatics; 2016 Sep; 32(17):i567-i575. PubMed ID: 27587676
[TBL] [Abstract][Full Text] [Related]
7. Comparison of different assembly and annotation tools on analysis of simulated viral metagenomic communities in the gut.
Vázquez-Castellanos JF; García-López R; Pérez-Brocal V; Pignatelli M; Moya A
BMC Genomics; 2014 Jan; 15():37. PubMed ID: 24438450
[TBL] [Abstract][Full Text] [Related]
8. De novo assembly of highly polymorphic metagenomic data using in situ generated reference sequences and a novel BLAST-based assembly pipeline.
Lin YY; Hsieh CH; Chen JH; Lu X; Kao JH; Chen PJ; Chen DS; Wang HY
BMC Bioinformatics; 2017 Apr; 18(1):223. PubMed ID: 28446139
[TBL] [Abstract][Full Text] [Related]
9. aBayesQR: A Bayesian Method for Reconstruction of Viral Populations Characterized by Low Diversity.
Ahn S; Vikalo H
J Comput Biol; 2018 Jul; 25(7):637-648. PubMed ID: 29480740
[TBL] [Abstract][Full Text] [Related]
10. Estimation of viral richness from shotgun metagenomes using a frequency count approach.
Allen HK; Bunge J; Foster JA; Bayles DO; Stanton TB
Microbiome; 2013 Feb; 1(1):5. PubMed ID: 24451229
[TBL] [Abstract][Full Text] [Related]
11. Viral quasispecies reconstruction via tensor factorization with successive read removal.
Ahn S; Ke Z; Vikalo H
Bioinformatics; 2018 Jul; 34(13):i23-i31. PubMed ID: 29949976
[TBL] [Abstract][Full Text] [Related]
12. Inference of viral quasispecies with a paired de Bruijn graph.
Freire B; Ladra S; Paramá JR; Salmela L
Bioinformatics; 2021 May; 37(4):473-481. PubMed ID: 32926162
[TBL] [Abstract][Full Text] [Related]
13. Streamlined Subpopulation, Subtype, and Recombination Analysis of HIV-1 Half-Genome Sequences Generated by High-Throughput Sequencing.
Hora B; Gulzar N; Chen Y; Karagiannis K; Cai F; Su C; Smith K; Simonyan V; Shah SA; Ahmed M; Sanchez AM; Stone M; Cohen MS; Denny TN; Mazumder R; Gao F
mSphere; 2020 Oct; 5(5):. PubMed ID: 33055255
[TBL] [Abstract][Full Text] [Related]
14. 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]
15. QSdpR: Viral quasispecies reconstruction via correlation clustering.
Barik S; Das S; Vikalo H
Genomics; 2018 Nov; 110(6):375-381. PubMed ID: 29268961
[TBL] [Abstract][Full Text] [Related]
16. K2Mem: Discovering Discriminative K-mers From Sequencing Data for Metagenomic Reads Classification.
Storato D; Comin M
IEEE/ACM Trans Comput Biol Bioinform; 2022; 19(1):220-229. PubMed ID: 34606462
[TBL] [Abstract][Full Text] [Related]
17. Fragmentation and Coverage Variation in Viral Metagenome Assemblies, and Their Effect in Diversity Calculations.
García-López R; Vázquez-Castellanos JF; Moya A
Front Bioeng Biotechnol; 2015; 3():141. PubMed ID: 26442255
[TBL] [Abstract][Full Text] [Related]
18. CoMet: a workflow using contig coverage and composition for binning a metagenomic sample with high precision.
Herath D; Tang SL; Tandon K; Ackland D; Halgamuge SK
BMC Bioinformatics; 2017 Dec; 18(Suppl 16):571. PubMed ID: 29297295
[TBL] [Abstract][Full Text] [Related]
19. QuasiSeq: profiling viral quasispecies via self-tuning spectral clustering with PacBio long sequencing reads.
Jiao X; Imamichi H; Sherman BT; Nahar R; Dewar RL; Lane HC; Imamichi T; Chang W
Bioinformatics; 2022 Jun; 38(12):3192-3199. PubMed ID: 35532087
[TBL] [Abstract][Full Text] [Related]
20. Genometa--a fast and accurate classifier for short metagenomic shotgun reads.
Davenport CF; Neugebauer J; Beckmann N; Friedrich B; Kameri B; Kokott S; Paetow M; Siekmann B; Wieding-Drewes M; Wienhöfer M; Wolf S; Tümmler B; Ahlers V; Sprengel F
PLoS One; 2012; 7(8):e41224. PubMed ID: 22927906
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]