Systematic evaluation of spliced alignment programs for RNA-seq data-Reference-Cited by-同舟云学术

Systematic evaluation of spliced alignment programs for RNA-seq data

Published:2013-11-03 Issue:12 Volume:10 Page:1185-1191
ISSN:1548-7091
Container-title:Nature Methods
language:en
Short-container-title:Nat Methods

Author:

Engström Pär G, ,Steijger Tamara,Sipos Botond,Grant Gregory R,Kahles André,Rätsch Gunnar,Goldman Nick,Hubbard Tim J,Harrow Jennifer,Guigó Roderic,Bertone Paul

Publisher

Springer Science and Business Media LLC

Subject

Cell Biology,Molecular Biology,Biochemistry,Biotechnology

Link

http://www.nature.com/articles/nmeth.2722.pdf

Reference24 articles.

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2. Fonseca, N.A., Rung, J., Brazma, A. & Marioni, J.C. Tools for mapping high-throughput sequencing data. Bioinformatics 28, 3169–3177 (2012).

3. Marco-Sola, S., Sammeth, M., Guigó, R. & Ribeca, P. The GEM mapper: fast, accurate and versatile alignment by filtration. Nat. Methods 9, 1185–1188 (2012).

4. Wang, K. et al. MapSplice: accurate mapping of RNA-seq reads for splice junction discovery. Nucleic Acids Res. 38, e178 (2010).

5. Trapnell, C., Pachter, L. & Salzberg, S.L. TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25, 1105–1111 (2009).

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