GenSeed-HMM
Progressive assembly tool using DNA, protein or profile HMMs as seeds.
GenSeed-HMM is a program for seed-driven progressive DNA assembly. It differs from the previously published GenSeed in many aspects, but more pointedly by being able to use an HMM profile as seed.
Basically, GenSeed-HMM performs three operations, repeatedly:
- recruit reads by matching them to a seed
- assemble the recruited reads (including previously assembled contigs)
- generate new seeds (for the next round of progressive assembly) from the extremities of all generated contigs...