Today marks a small milestone in the development of this project. A technical description of s-aligner containing a further analysis of its capabilities is finally available to the public. I hope it can be peer-reviewed in the next weeks or months. It is already being scrutinized by the community. I invite you to read it and participate in the discussion.
If you don’t have much time, here you have also a summary of the main ideas and results.
S-aligner is a simple idea. No big breakthrough discovery has been required to develop it. Just high skills developing software and selecting/discarding technologies and ideas.
Some characteristics of s-aligner are:
And it outperforms every software it was tested against for viral de novo genome assembly.
Overall, s-aligner performs on average 110% better than the second-best with the viral benchmark sets analyzed and 64% better with a benchmark set containing samples with extraordinarily large viruses (~250kbp).
All these advantages mean that in a crisis like the one caused by COVID-19, the hundreds of thousands of sequencings being done around the world could make use of cheaper resources to obtain equivalent or superior quality in the results. That could have a significant impact on the management of the crisis.