239 related articles for article (PubMed ID: 28407147)
1. HaploMerger2: rebuilding both haploid sub-assemblies from high-heterozygosity diploid genome assembly.
Huang S; Kang M; Xu A
Bioinformatics; 2017 Aug; 33(16):2577-2579. PubMed ID: 28407147
[TBL] [Abstract][Full Text] [Related]
2. Purge Haplotigs: allelic contig reassignment for third-gen diploid genome assemblies.
Roach MJ; Schmidt SA; Borneman AR
BMC Bioinformatics; 2018 Nov; 19(1):460. PubMed ID: 30497373
[TBL] [Abstract][Full Text] [Related]
3. A comparative analysis of methods for de novo assembly of hymenopteran genomes using either haploid or diploid samples.
Yahav T; Privman E
Sci Rep; 2019 Apr; 9(1):6480. PubMed ID: 31019201
[TBL] [Abstract][Full Text] [Related]
4. A graph-based approach to diploid genome assembly.
Garg S; Rautiainen M; Novak AM; Garrison E; Durbin R; Marschall T
Bioinformatics; 2018 Jul; 34(13):i105-i114. PubMed ID: 29949989
[TBL] [Abstract][Full Text] [Related]
5. Overcoming uncollapsed haplotypes in long-read assemblies of non-model organisms.
Guiglielmoni N; Houtain A; Derzelle A; Van Doninck K; Flot JF
BMC Bioinformatics; 2021 Jun; 22(1):303. PubMed ID: 34090340
[TBL] [Abstract][Full Text] [Related]
6. phasebook: haplotype-aware de novo assembly of diploid genomes from long reads.
Luo X; Kang X; Schönhuth A
Genome Biol; 2021 Oct; 22(1):299. PubMed ID: 34706745
[TBL] [Abstract][Full Text] [Related]
7. ntLink: A Toolkit for De Novo Genome Assembly Scaffolding and Mapping Using Long Reads.
Coombe L; Warren RL; Wong J; Nikolic V; Birol I
Curr Protoc; 2023 Apr; 3(4):e733. PubMed ID: 37039735
[TBL] [Abstract][Full Text] [Related]
8. HaploMerger: reconstructing allelic relationships for polymorphic diploid genome assemblies.
Huang S; Chen Z; Huang G; Yu T; Yang P; Li J; Fu Y; Yuan S; Chen S; Xu A
Genome Res; 2012 Aug; 22(8):1581-8. PubMed ID: 22555592
[TBL] [Abstract][Full Text] [Related]
9. Redundans: an assembly pipeline for highly heterozygous genomes.
Pryszcz LP; Gabaldón T
Nucleic Acids Res; 2016 Jul; 44(12):e113. PubMed ID: 27131372
[TBL] [Abstract][Full Text] [Related]
10. Constructing telomere-to-telomere diploid genome by polishing haploid nanopore-based assembly.
Darian JC; Kundu R; Rajaby R; Sung WK
Nat Methods; 2024 Apr; 21(4):574-583. PubMed ID: 38459383
[TBL] [Abstract][Full Text] [Related]
11. Heterozygous genome assembly via binary classification of homologous sequence.
Bodily PM; Fujimoto M; Ortega C; Okuda N; Price JC; Clement MJ; Snell Q
BMC Bioinformatics; 2015; 16 Suppl 7(Suppl 7):S5. PubMed ID: 25952609
[TBL] [Abstract][Full Text] [Related]
12. gcaPDA: a haplotype-resolved diploid assembler.
Xie M; Yang L; Jiang C; Wu S; Luo C; Yang X; He L; Chen S; Deng T; Ye M; Yan J; Yang N
BMC Bioinformatics; 2022 Feb; 23(1):68. PubMed ID: 35164674
[TBL] [Abstract][Full Text] [Related]
13. De novo diploid genome assembly using long noisy reads.
Nie F; Ni P; Huang N; Zhang J; Wang Z; Xiao C; Luo F; Wang J
Nat Commun; 2024 Apr; 15(1):2964. PubMed ID: 38580638
[TBL] [Abstract][Full Text] [Related]
14. GAVISUNK: genome assembly validation via inter-SUNK distances in Oxford Nanopore reads.
Dishuck PC; Rozanski AN; Logsdon GA; Porubsky D; Eichler EE
Bioinformatics; 2023 Jan; 39(1):. PubMed ID: 36321867
[TBL] [Abstract][Full Text] [Related]
15. ARCS: scaffolding genome drafts with linked reads.
Yeo S; Coombe L; Warren RL; Chu J; Birol I
Bioinformatics; 2018 Mar; 34(5):725-731. PubMed ID: 29069293
[TBL] [Abstract][Full Text] [Related]
16. scanPAV: a pipeline for extracting presence-absence variations in genome pairs.
Giordano F; Stammnitz MR; Murchison EP; Ning Z
Bioinformatics; 2018 Sep; 34(17):3022-3024. PubMed ID: 29608694
[TBL] [Abstract][Full Text] [Related]
17. Identifying and removing haplotypic duplication in primary genome assemblies.
Guan D; McCarthy SA; Wood J; Howe K; Wang Y; Durbin R
Bioinformatics; 2020 May; 36(9):2896-2898. PubMed ID: 31971576
[TBL] [Abstract][Full Text] [Related]
18. RecoverY: k-mer-based read classification for Y-chromosome-specific sequencing and assembly.
Rangavittal S; Harris RS; Cechova M; Tomaszkiewicz M; Chikhi R; Makova KD; Medvedev P
Bioinformatics; 2018 Apr; 34(7):1125-1131. PubMed ID: 29194476
[TBL] [Abstract][Full Text] [Related]
19. Phased diploid genome assembly with single-molecule real-time sequencing.
Chin CS; Peluso P; Sedlazeck FJ; Nattestad M; Concepcion GT; Clum A; Dunn C; O'Malley R; Figueroa-Balderas R; Morales-Cruz A; Cramer GR; Delledonne M; Luo C; Ecker JR; Cantu D; Rank DR; Schatz MC
Nat Methods; 2016 Dec; 13(12):1050-1054. PubMed ID: 27749838
[TBL] [Abstract][Full Text] [Related]
20. BAUM: improving genome assembly by adaptive unique mapping and local overlap-layout-consensus approach.
Wang A; Wang Z; Li Z; Li LM
Bioinformatics; 2018 Jun; 34(12):2019-2028. PubMed ID: 29346504
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
