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lh3 / bwa

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

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Did bwa index use the SA-IS algorithm?

MiyaaL opened this issue · comments

commented

I found that the bwa indexing process took a long time. In addition, I noticed that the SA-IS algorithm is almost the fastest suffix sorting algorithm. Has this algorithm been applied in bwa? Or is there any multi-thread version available now?