129 related articles for article (PubMed ID: 27924003)
1. The combination of direct and paired link graphs can boost repetitive genome assembly.
Shi W; Ji P; Zhao F
Nucleic Acids Res; 2017 Apr; 45(6):e43. PubMed ID: 27924003
[TBL] [Abstract][Full Text] [Related]
2. Benchmarking of de novo assembly algorithms for Nanopore data reveals optimal performance of OLC approaches.
Cherukuri Y; Janga SC
BMC Genomics; 2016 Aug; 17 Suppl 7(Suppl 7):507. PubMed ID: 27556636
[TBL] [Abstract][Full Text] [Related]
3. Paired de bruijn graphs: a novel approach for incorporating mate pair information into genome assemblers.
Medvedev P; Pham S; Chaisson M; Tesler G; Pevzner P
J Comput Biol; 2011 Nov; 18(11):1625-34. PubMed ID: 21999285
[TBL] [Abstract][Full Text] [Related]
4. EPGA: de novo assembly using the distributions of reads and insert size.
Luo J; Wang J; Zhang Z; Wu FX; Li M; Pan Y
Bioinformatics; 2015 Mar; 31(6):825-33. PubMed ID: 25406329
[TBL] [Abstract][Full Text] [Related]
5. BOSS: a novel scaffolding algorithm based on an optimized scaffold graph.
Luo J; Wang J; Zhang Z; Li M; Wu FX
Bioinformatics; 2017 Jan; 33(2):169-176. PubMed ID: 27634951
[TBL] [Abstract][Full Text] [Related]
6. ISEA: Iterative Seed-Extension Algorithm for De Novo Assembly Using Paired-End Information and Insert Size Distribution.
Li M; Liao Z; He Y; Wang J; Luo J; Pan Y
IEEE/ACM Trans Comput Biol Bioinform; 2017; 14(4):916-925. PubMed ID: 27076460
[TBL] [Abstract][Full Text] [Related]
7. Repeat-aware evaluation of scaffolding tools.
Mandric I; Knyazev S; Zelikovsky A
Bioinformatics; 2018 Aug; 34(15):2530-2537. PubMed ID: 29547882
[TBL] [Abstract][Full Text] [Related]
8. Illumina error correction near highly repetitive DNA regions improves de novo genome assembly.
Heydari M; Miclotte G; Van de Peer Y; Fostier J
BMC Bioinformatics; 2019 Jun; 20(1):298. PubMed ID: 31159722
[TBL] [Abstract][Full Text] [Related]
9. SCOP: a novel scaffolding algorithm based on contig classification and optimization.
Li M; Tang L; Wu FX; Pan Y; Wang J
Bioinformatics; 2019 Apr; 35(7):1142-1150. PubMed ID: 30184046
[TBL] [Abstract][Full Text] [Related]
10. Canu: scalable and accurate long-read assembly via adaptive
Koren S; Walenz BP; Berlin K; Miller JR; Bergman NH; Phillippy AM
Genome Res; 2017 May; 27(5):722-736. PubMed ID: 28298431
[TBL] [Abstract][Full Text] [Related]
11. Assembly of long, error-prone reads using repeat graphs.
Kolmogorov M; Yuan J; Lin Y; Pevzner PA
Nat Biotechnol; 2019 May; 37(5):540-546. PubMed ID: 30936562
[TBL] [Abstract][Full Text] [Related]
12. Velvet: algorithms for de novo short read assembly using de Bruijn graphs.
Zerbino DR; Birney E
Genome Res; 2008 May; 18(5):821-9. PubMed ID: 18349386
[TBL] [Abstract][Full Text] [Related]
13. Telescoper: de novo assembly of highly repetitive regions.
Bresler M; Sheehan S; Chan AH; Song YS
Bioinformatics; 2012 Sep; 28(18):i311-i317. PubMed ID: 22962446
[TBL] [Abstract][Full Text] [Related]
14. AGORA: Assembly Guided by Optical Restriction Alignment.
Lin HC; Goldstein S; Mendelowitz L; Zhou S; Wetzel J; Schwartz DC; Pop M
BMC Bioinformatics; 2012 Aug; 13():189. PubMed ID: 22856673
[TBL] [Abstract][Full Text] [Related]
15. Integration of string and de Bruijn graphs for genome assembly.
Huang YT; Liao CF
Bioinformatics; 2016 May; 32(9):1301-7. PubMed ID: 26755626
[TBL] [Abstract][Full Text] [Related]
16. Pathset graphs: a novel approach for comprehensive utilization of paired reads in genome assembly.
Pham SK; Antipov D; Sirotkin A; Tesler G; Pevzner PA; Alekseyev MA
J Comput Biol; 2013 Apr; 20(4):359-71. PubMed ID: 22803627
[TBL] [Abstract][Full Text] [Related]
17. De novo assembly of bacterial genomes with repetitive DNA regions by dnaasm application.
Kuśmirek W; Nowak R
BMC Bioinformatics; 2018 Jul; 19(1):273. PubMed ID: 30021513
[TBL] [Abstract][Full Text] [Related]
18. Fast de Bruijn Graph Compaction in Distributed Memory Environments.
Pan T; Nihalani R; Aluru S
IEEE/ACM Trans Comput Biol Bioinform; 2020; 17(1):136-148. PubMed ID: 30072337
[TBL] [Abstract][Full Text] [Related]
19. Assembly of long error-prone reads using de Bruijn graphs.
Lin Y; Yuan J; Kolmogorov M; Shen MW; Chaisson M; Pevzner PA
Proc Natl Acad Sci U S A; 2016 Dec; 113(52):E8396-E8405. PubMed ID: 27956617
[TBL] [Abstract][Full Text] [Related]
20. HyDA-Vista: towards optimal guided selection of k-mer size for sequence assembly.
Shariat B; Movahedi NS; Chitsaz H; Boucher C
BMC Genomics; 2014; 15 Suppl 10(Suppl 10):S9. PubMed ID: 25558875
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]