Advertisement

< Back to Article

Fast Statistical Alignment

Figure 2

The default Pair HMM used by FSA.

By default FSA uses a Pair HMM with two sets of Insert (I) and Delete (D) states to generate a two-component geometric mixture distribution. FSA can optionally use a three-state HMM, which has only one set of Insert and Delete states. M is a Match state emitting aligned characters.

Figure 2

doi: https://doi.org/10.1371/journal.pcbi.1000392.g002