Science October 22nd, 2013 Better sequences (and fewer homopolymer errors) for Ion Torrent The short read files that Ion Torrent’s sequencing machines give us still contain many homopolymer errors: errors in the number of bases called when a single nucleotide occurs more than once in sequence. This makes alignment harder and drowns real indels in a sea of noise. These homopolymer errors arise … Written by Nate Science June 4th, 2013 Short read alignment: seeding In my last post I explained some of the basics of short read alignment algorithms. Go read it if you like; if not, recall that: Many modern alignment algorithms rely on what is called seeding and extending. “Seeding” is finding exact matches of part of the read with part of the … Written by Nate
