205 related articles for article (PubMed ID: 24564867)
1. HSA: a heuristic splice alignment tool.
Bu J; Chi X; Jin Z
BMC Syst Biol; 2013; 7 Suppl 2(Suppl 2):S10. PubMed ID: 24564867
[TBL] [Abstract][Full Text] [Related]
2. RNA-Seq read alignments with PALMapper.
Jean G; Kahles A; Sreedharan VT; De Bona F; Rätsch G
Curr Protoc Bioinformatics; 2010 Dec; Chapter 11():Unit 11.6. PubMed ID: 21154708
[TBL] [Abstract][Full Text] [Related]
3. TopHat-Recondition: a post-processor for TopHat unmapped reads.
Brueffer C; Saal LH
BMC Bioinformatics; 2016 May; 17(1):199. PubMed ID: 27142976
[TBL] [Abstract][Full Text] [Related]
4. Re-alignment of the unmapped reads with base quality score.
Peng X; Wang J; Zhang Z; Xiao Q; Li M; Pan Y
BMC Bioinformatics; 2015; 16 Suppl 5(Suppl 5):S8. PubMed ID: 25860434
[TBL] [Abstract][Full Text] [Related]
5. CUSHAW3: sensitive and accurate base-space and color-space short-read alignment with hybrid seeding.
Liu Y; Popp B; Schmidt B
PLoS One; 2014; 9(1):e86869. PubMed ID: 24466273
[TBL] [Abstract][Full Text] [Related]
6. 2passtools: two-pass alignment using machine-learning-filtered splice junctions increases the accuracy of intron detection in long-read RNA sequencing.
Parker MT; Knop K; Barton GJ; Simpson GG
Genome Biol; 2021 Mar; 22(1):72. PubMed ID: 33648554
[TBL] [Abstract][Full Text] [Related]
7. 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]
8. AUSPP: A universal short-read pre-processing package.
Gao L; Wu C; Liu L
J Bioinform Comput Biol; 2019 Dec; 17(6):1950037. PubMed ID: 32019418
[TBL] [Abstract][Full Text] [Related]
9. A fast read alignment method based on seed-and-vote for next generation sequencing.
Liu S; Wang Y; Wang F
BMC Bioinformatics; 2016 Dec; 17(Suppl 17):466. PubMed ID: 28155631
[TBL] [Abstract][Full Text] [Related]
10. Systematic evaluation of spliced alignment programs for RNA-seq data.
Engström PG; Steijger T; Sipos B; Grant GR; Kahles A; Rätsch G; Goldman N; Hubbard TJ; Harrow J; Guigó R; Bertone P;
Nat Methods; 2013 Dec; 10(12):1185-91. PubMed ID: 24185836
[TBL] [Abstract][Full Text] [Related]
11. OSA: a fast and accurate alignment tool for RNA-Seq.
Hu J; Ge H; Newman M; Liu K
Bioinformatics; 2012 Jul; 28(14):1933-4. PubMed ID: 22592379
[TBL] [Abstract][Full Text] [Related]
12. JAGuaR: junction alignments to genome for RNA-seq reads.
Butterfield YS; Kreitzman M; Thiessen N; Corbett RD; Li Y; Pang J; Ma YP; Jones SJ; Birol İ
PLoS One; 2014; 9(7):e102398. PubMed ID: 25062255
[TBL] [Abstract][Full Text] [Related]
13. HSRA: Hadoop-based spliced read aligner for RNA sequencing data.
Expósito RR; González-Domínguez J; Touriño J
PLoS One; 2018; 13(7):e0201483. PubMed ID: 30063721
[TBL] [Abstract][Full Text] [Related]
14. 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]
15. TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions.
Kim D; Pertea G; Trapnell C; Pimentel H; Kelley R; Salzberg SL
Genome Biol; 2013 Apr; 14(4):R36. PubMed ID: 23618408
[TBL] [Abstract][Full Text] [Related]
16. 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]
17. Read-Split-Run: an improved bioinformatics pipeline for identification of genome-wide non-canonical spliced regions using RNA-Seq data.
Bai Y; Kinne J; Donham B; Jiang F; Ding L; Hassler JR; Kaufman RJ
BMC Genomics; 2016 Aug; 17 Suppl 7(Suppl 7):503. PubMed ID: 27556805
[TBL] [Abstract][Full Text] [Related]
18. 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]
19. Evaluation of tools for long read RNA-seq splice-aware alignment.
Križanovic K; Echchiki A; Roux J; Šikic M
Bioinformatics; 2018 Mar; 34(5):748-754. PubMed ID: 29069314
[TBL] [Abstract][Full Text] [Related]
20. Using RNA-Seq to Discover Genetic Polymorphisms That Produce Hidden Splice Variants.
Stein S; Bahrami-Samani E; Xing Y
Methods Mol Biol; 2017; 1648():129-142. PubMed ID: 28766294
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
