These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.
7. LSG: An External-Memory Tool to Compute String Graphs for Next-Generation Sequencing Data Assembly. Bonizzoni P; Vedova GD; Pirola Y; Previtali M; Rizzi R J Comput Biol; 2016 Mar; 23(3):137-49. PubMed ID: 26953874 [TBL] [Abstract][Full Text] [Related]
8. Safe and Complete Contig Assembly Through Omnitigs. Tomescu AI; Medvedev P J Comput Biol; 2017 Jun; 24(6):590-602. PubMed ID: 27749096 [TBL] [Abstract][Full Text] [Related]
9. ScaffMatch: scaffolding algorithm based on maximum weight matching. Mandric I; Zelikovsky A Bioinformatics; 2015 Aug; 31(16):2632-8. PubMed ID: 25890305 [TBL] [Abstract][Full Text] [Related]
10. Pasa: leveraging population pangenome graph to scaffold prokaryote genome assemblies. Do VH; Nguyen SH; Le DQ; Nguyen TT; Nguyen CH; Ho TH; Vo NS; Nguyen T; Nguyen HA; Cao MD Nucleic Acids Res; 2024 Feb; 52(3):e15. PubMed ID: 38084888 [TBL] [Abstract][Full Text] [Related]
11. Read mapping on de Bruijn graphs. Limasset A; Cazaux B; Rivals E; Peterlongo P BMC Bioinformatics; 2016 Jun; 17(1):237. PubMed ID: 27306641 [TBL] [Abstract][Full Text] [Related]
12. Efficient and scalable scaffolding using optical restriction maps. Saha S; Rajasekaran S BMC Genomics; 2014; 15 Suppl 5(Suppl 5):S5. PubMed ID: 25081913 [TBL] [Abstract][Full Text] [Related]
13. SLHSD: hybrid scaffolding method based on short and long reads. Luo J; Guan T; Chen G; Yu Z; Zhai H; Yan C; Luo H Brief Bioinform; 2023 May; 24(3):. PubMed ID: 37141142 [TBL] [Abstract][Full Text] [Related]
14. Optimal assembly for high throughput shotgun sequencing. Bresler G; Bresler M; Tse D BMC Bioinformatics; 2013; 14 Suppl 5(Suppl 5):S18. PubMed ID: 23902516 [TBL] [Abstract][Full Text] [Related]
15. CSAR: a contig scaffolding tool using algebraic rearrangements. Chen KT; Liu CL; Huang SH; Shen HT; Shieh YK; Chiu HT; Lu CL Bioinformatics; 2018 Jan; 34(1):109-111. PubMed ID: 28968788 [TBL] [Abstract][Full Text] [Related]
16. SLIQ: simple linear inequalities for efficient contig scaffolding. Roy RS; Chen KC; Sengupta AM; Schliep A J Comput Biol; 2012 Oct; 19(10):1162-75. PubMed ID: 23057825 [TBL] [Abstract][Full Text] [Related]
18. 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]