Rich Roberts discusses single-molecule sequencing technology with Biome reporter. part 6
Current next-generation sequencing software is designed for short reads. With the longer sequence reads of SMRT sequencing, are we going to have to revisit old software solutions that were developed for long reads generated by Sanger sequencing?
It is always a good idea to revisit software. In the case of 10 Kb reads the earlier software should be up to the task as it has become easier. However, with methylated base data also available some other improved approaches should be possible. I helped write the original assembly programs back in the 1970’s, but have not given much thought to the problem since then as we were just interested in what would now be considered short sequences (Adenovirus-2 was just 36 Kb long). The sequences needing assembly today are megabases or gigabases long and more challenging. I am having too much fun exploring bacterial epigenetics!