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Minimap2 algorithm : seed-chain-align

Hello all,

I am trying to understand the algorithm of Minimap2. Here, so far I understand follows a typical seed-chain-align procedure. However, I did not understand for seeding how the k-mers are selected and how long are they?

Could someone help me understand it?

minimap2 aligner ont
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written by KVC_bioinfo KVC_bioinfo

Yes, In the interest of understanding it I have reached there. If this is not allowed I will close the question.

Thank you.

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written by KVC_bioinfo KVC_bioinfo

I think it should be allowed - but don't forget to add links in that case.

We don't want that someone else spends a lot of effort here only to find out later that the question already received an answer on GitHub.

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written by WouterDeCoster WouterDeCoster

Sure. Thank you. I will take care of next time.

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written by KVC_bioinfo KVC_bioinfo

1 answer

I found the answer.

"With normal k-mer, the k-mer size is specified on the command line. It varies with presets."

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written by KVC_bioinfo KVC_bioinfo

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