Vladimír Boža, Broňa Brejová, Tomáš Vinař. Improving Nanopore Reads Raw Signal Alignment. Technical Report arXiv:1705.01620, arXiv, 2017.

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Abstract:

We investigate usage of dynamic time warping (DTW) algorithm for aligning 
raw signal data from MinION sequencer. DTW is mostly using for fast 
alignment for selective sequencing to quickly determine whether a read comes 
from sequence of interest. 

We show that standard usage of DTW has low discriminative power mainly due 
to problem with accurate estimation of scaling parameters. We propose a 
simple variation of DTW algorithm, which does not suffer from scaling 
problems and has much higher discriminative power.

Last update: 08/02/2017