We apply the concept of subset seeds to similarity search in protein sequences. The main question studied is the design of efficient seed alphabets to ...
Jan 21, 2009 · Since the protein alphabet is much larger than the one of DNA, subset seeds provide a very attractive seeding option for protein alignment. In ...
This directory contains experimental datasets, results and associated scripts related to the paper On subset seeds for protein alignment
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We apply the concept of subset seeds proposed in [1] to similarity search in protein sequences. The main question studied is the design of efficient seed ...
We apply the concept of subset seeds to similarity search in protein sequences. The main question studied is the design of efficient seed alphabets to ...
We apply the concept of subset seeds proposed in [1] to similarity search in protein sequences. The main question studied is the design of efficient seed...
Mar 16, 2019 · The seed is the subset of a read used in the first step of an alignment. Many aligners work by a seed-and-extend model.
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Most of the time, true alignments contain small patterns, called seeds, that are shared by the two sequences in an exact way. These seeds are used to reduce. DP ...
Our method computes, by an evolutionary algorithm, seeds that are specifically designed for a given protein family. The representation of seeds by deterministic ...
Recently, a concept of subset seeds has been proposed for similarity search in protein sequences. We experimentally evaluate the applicability of subset seeds ...