199 related articles for article (PubMed ID: 23300661)
1. A comprehensive evaluation of alignment algorithms in the context of RNA-seq.
Lindner R; Friedel CC
PLoS One; 2012; 7(12):e52403. PubMed ID: 23300661
[TBL] [Abstract][Full Text] [Related]
2. ContextMap 2: fast and accurate context-based RNA-seq mapping.
Bonfert T; Kirner E; Csaba G; Zimmer R; Friedel CC
BMC Bioinformatics; 2015 Apr; 16():122. PubMed ID: 25928589
[TBL] [Abstract][Full Text] [Related]
3. STAR: ultrafast universal RNA-seq aligner.
Dobin A; Davis CA; Schlesinger F; Drenkow J; Zaleski C; Jha S; Batut P; Chaisson M; Gingeras TR
Bioinformatics; 2013 Jan; 29(1):15-21. PubMed ID: 23104886
[TBL] [Abstract][Full Text] [Related]
4. A context-based approach to identify the most likely mapping for RNA-seq experiments.
Bonfert T; Csaba G; Zimmer R; Friedel CC
BMC Bioinformatics; 2012 Apr; 13 Suppl 6(Suppl 6):S9. PubMed ID: 22537048
[TBL] [Abstract][Full Text] [Related]
5. Mapping RNA-seq reads to transcriptomes efficiently based on learning to hash method.
Yu X; Liu X
Comput Biol Med; 2020 Jan; 116():103539. PubMed ID: 31765913
[TBL] [Abstract][Full Text] [Related]
6. Comparative analysis of RNA-Seq alignment algorithms and the RNA-Seq unified mapper (RUM).
Grant GR; Farkas MH; Pizarro AD; Lahens NF; Schug J; Brunk BP; Stoeckert CJ; Hogenesch JB; Pierce EA
Bioinformatics; 2011 Sep; 27(18):2518-28. PubMed ID: 21775302
[TBL] [Abstract][Full Text] [Related]
7. Oculus: faster sequence alignment by streaming read compression.
Veeneman BA; Iyer MK; Chinnaiyan AM
BMC Bioinformatics; 2012 Nov; 13():297. PubMed ID: 23148484
[TBL] [Abstract][Full Text] [Related]
8. Optimizing RNA-Seq Mapping with STAR.
Dobin A; Gingeras TR
Methods Mol Biol; 2016; 1415():245-62. PubMed ID: 27115637
[TBL] [Abstract][Full Text] [Related]
9. Evaluation of alignment algorithms for discovery and identification of pathogens using RNA-Seq.
Borozan I; Watt SN; Ferretti V
PLoS One; 2013; 8(10):e76935. PubMed ID: 24204709
[TBL] [Abstract][Full Text] [Related]
10. Performance evaluation of lossy quality compression algorithms for RNA-seq data.
Yu R; Yang W; Wang S
BMC Bioinformatics; 2020 Jul; 21(1):321. PubMed ID: 32689929
[TBL] [Abstract][Full Text] [Related]
11. ASElux: an ultra-fast and accurate allelic reads counter.
Miao Z; Alvarez M; Pajukanta P; Ko A
Bioinformatics; 2018 Apr; 34(8):1313-1320. PubMed ID: 29186329
[TBL] [Abstract][Full Text] [Related]
12. Dissect: detection and characterization of novel structural alterations in transcribed sequences.
Yorukoglu D; Hach F; Swanson L; Collins CC; Birol I; Sahinalp SC
Bioinformatics; 2012 Jun; 28(12):i179-87. PubMed ID: 22689759
[TBL] [Abstract][Full Text] [Related]
13. RapMap: a rapid, sensitive and accurate tool for mapping RNA-seq reads to transcriptomes.
Srivastava A; Sarkar H; Gupta N; Patro R
Bioinformatics; 2016 Jun; 32(12):i192-i200. PubMed ID: 27307617
[TBL] [Abstract][Full Text] [Related]
14. FBB: a fast Bayesian-bound tool to calibrate RNA-seq aligners.
Rodriguez-Lujan I; Hasty J; Huerta R
Bioinformatics; 2017 Jan; 33(2):210-218. PubMed ID: 27663496
[TBL] [Abstract][Full Text] [Related]
15. GMAP and GSNAP for Genomic Sequence Alignment: Enhancements to Speed, Accuracy, and Functionality.
Wu TD; Reeder J; Lawrence M; Becker G; Brauer MJ
Methods Mol Biol; 2016; 1418():283-334. PubMed ID: 27008021
[TBL] [Abstract][Full Text] [Related]
16. ORMAN: optimal resolution of ambiguous RNA-Seq multimappings in the presence of novel isoforms.
Dao P; Numanagić I; Lin YY; Hach F; Karakoc E; Donmez N; Collins C; Eichler EE; Sahinalp SC
Bioinformatics; 2014 Mar; 30(5):644-51. PubMed ID: 24130305
[TBL] [Abstract][Full Text] [Related]
17. Fast and SNP-aware short read alignment with SALT.
Quan W; Liu B; Wang Y
BMC Bioinformatics; 2021 Aug; 22(Suppl 9):172. PubMed ID: 34433415
[TBL] [Abstract][Full Text] [Related]
18. Short Sequence Aligner Benchmarking for Chromatin Research.
Carter JL; Stevens H; Ridge PG; Johnson SM
Int J Mol Sci; 2023 Sep; 24(18):. PubMed ID: 37762379
[TBL] [Abstract][Full Text] [Related]
19. Ψ-RA: a parallel sparse index for genomic read alignment.
Oğuzhan Külekci M; Hon WK; Shah R; Scott Vitter J; Xu B
BMC Genomics; 2011; 12 Suppl 2(Suppl 2):S7. PubMed ID: 21989248
[TBL] [Abstract][Full Text] [Related]
20. CADBURE: A generic tool to evaluate the performance of spliced aligners on RNA-Seq data.
Kumar PK; Hoang TV; Robinson ML; Tsonis PA; Liang C
Sci Rep; 2015 Aug; 5():13443. PubMed ID: 26304587
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
