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icthrm / cwSDTWnano

Here we proposed two novel algorithms, the Direct Subsequence Dynamic Time Warping for nanopore raw signal search (DSDTWnano) and the continuous wavelet Subsequence DTW for nanopore raw signal search (cwSDTWnano), to enable the direct subsequence inquiry and exact mapping in the nanopore raw signal datasets. The proposed algorithms are based on the idea of Subsequence-extended Dynamic Time Warping (SDTW) and directly operates on the raw signals, without any loss of information. DSDTWnano could ensure an output of highly accurate query result and cwSDTWnano is the accelerated version of DSDTWnano, with the help of seeding and multi-scale coarsening of signals that based on continuous wavelet transform (CWT).
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Support for 5mer pore model #3

Open Verisimilian opened 4 years ago

Verisimilian commented 4 years ago

Is there currently support for the 5mer pore model, and if not could this be easily implemented locally?

icthrm commented 4 years ago

Hi, we have used 5mer model before. However, we updated the code with 6mer model now. It is easy to use 5mer model but you should make some change of the code.

Verisimilian notifications@github.com 于2020年6月28日周日 下午11:28写道：

Is there currently support for the 5mer pore model, and if not could this be easily implemented locally?

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