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tHapMix: simulating tumour samples through haplotype mixtures.
Ivakhno S, Colombo C, Tanner S, Tedder P, Berri S, Cox AJ. Ivakhno S, et al. Among authors: cox aj. Bioinformatics. 2017 Jan 15;33(2):280-282. doi: 10.1093/bioinformatics/btw589. Epub 2016 Sep 7. Bioinformatics. 2017. PMID: 27605106
BEETL-fastq: a searchable compressed archive for DNA reads.
Janin L, Schulz-Trieglaff O, Cox AJ. Janin L, et al. Among authors: cox aj. Bioinformatics. 2014 Oct;30(19):2796-801. doi: 10.1093/bioinformatics/btu387. Epub 2014 Jun 20. Bioinformatics. 2014. PMID: 24950811
AKT: ancestry and kinship toolkit.
Arthur R, Schulz-Trieglaff O, Cox AJ, O'Connell J. Arthur R, et al. Among authors: cox aj. Bioinformatics. 2017 Jan 1;33(1):142-144. doi: 10.1093/bioinformatics/btw576. Epub 2016 Sep 14. Bioinformatics. 2017. PMID: 27634946
NxTrim: optimized trimming of Illumina mate pair reads.
O'Connell J, Schulz-Trieglaff O, Carlson E, Hims MM, Gormley NA, Cox AJ. O'Connell J, et al. Among authors: cox aj. Bioinformatics. 2015 Jun 15;31(12):2035-7. doi: 10.1093/bioinformatics/btv057. Epub 2015 Feb 5. Bioinformatics. 2015. PMID: 25661542
Genome sequencing and analysis of the Tasmanian devil and its transmissible cancer.
Murchison EP, Schulz-Trieglaff OB, Ning Z, Alexandrov LB, Bauer MJ, Fu B, Hims M, Ding Z, Ivakhno S, Stewart C, Ng BL, Wong W, Aken B, White S, Alsop A, Becq J, Bignell GR, Cheetham RK, Cheng W, Connor TR, Cox AJ, Feng ZP, Gu Y, Grocock RJ, Harris SR, Khrebtukova I, Kingsbury Z, Kowarsky M, Kreiss A, Luo S, Marshall J, McBride DJ, Murray L, Pearse AM, Raine K, Rasolonjatovo I, Shaw R, Tedder P, Tregidgo C, Vilella AJ, Wedge DC, Woods GM, Gormley N, Humphray S, Schroth G, Smith G, Hall K, Searle SM, Carter NP, Papenfuss AT, Futreal PA, Campbell PJ, Yang F, Bentley DR, Evers DJ, Stratton MR. Murchison EP, et al. Among authors: cox aj. Cell. 2012 Feb 17;148(4):780-91. doi: 10.1016/j.cell.2011.11.065. Cell. 2012. PMID: 22341448 Free PMC article.
326 results