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Figure 6 | BMC Bioinformatics

Figure 6

From: Efficient decoding algorithms for generalized hidden Markov model gene finders

Figure 6

The traceback() algorithm. Reconstruction of the optimal parse by tracing back through trellis links. Parameters are the selected right-terminus signal s and its chosen phase ω. Returns a stack of signals constituting the optimal parse, with the top signal at the beginning of the parse and the bottom signal at the end. exon_length(p, s) denotes the number of coding nucleotides between p and s. The procedure operates by iteratively following the highest-scoring predecessor link from the current signal, adjusting the current phase as necessary when a trellis link corresponding to a coding feature is traversed.

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