Friday, March 30, 2012

Fwd: Fast gapped-read alignment with Bowtie 2

Fwd: please follow footer link
Fast gapped-read alignment with Bowtie 2:

Fast gapped-read alignment with Bowtie 2

Nature Methods 9, 357 (2012).
doi:10.1038/nmeth.1923

Authors: Ben Langmead & Steven L Salzberg

As the rate of sequencing increases, greater throughput is demanded from read aligners. The full-text minute index is often used to make alignment very fast and memory-efficient, but the approach is ill-suited to finding longer, gapped alignments. Bowtie 2 combines the strengths of the full-text minute index with the flexibility and speed of hardware-accelerated dynamic programming algorithms to achieve a combination of high speed, sensitivity and accuracy.



(Original Post: Nature Methods current.)