Hobbes: optimized gram-based methods for efficient read alignment

Author:

Ahmadi Athena1,Behm Alexander1,Honnalli Nagesh1,Li Chen1,Weng Lingjie1,Xie Xiaohui11

Affiliation:

1. Department of Computer Science and 2 Institute of Genomics and Bioinformatics, University of California, Irvine, CA 92697, USA

Publisher

Oxford University Press (OUP)

Subject

Genetics

Reference28 articles.

1. A block sorting lossless data compression algorithm;Burrows,1994

2. An experimental study of an opportunistic index;Ferragina,2001

3. Ultrafast and memory-efficient alignment of short dna sequences to the human genome;Langmead;Genome Biol.,2009

4. Fast and accurate short read alignment with burrows-wheeler transform;Li;Bioinformatics,2009

5. Soap2: an improved ultrafast tool for short read alignment;Li;Bioinformatics,2009

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