A hidden Markov model of the generated signal in Illumina sequencing-by-synthesis platforms. An illustration of the graphical HMM of the Illumina’s sequencing platform. The observations y″represent signal intensities after the removal of residual effects. The states are the combinations of and λt, which represent a subsequence of the template centered at position t and per-cluster density, respectively.
Shen and Vikalo BMC Bioinformatics 2012 13:160 doi:10.1186/1471-2105-13-160