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lh3 / minigraph

Sequence-to-graph mapper and graph generator
https://lh3.github.io/minigraph
MIT License
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How does minigraph estimate per-base sequence divergence? #74

Closed hgibling closed 2 years ago

hgibling commented 2 years ago

Hello,

When not doing base-level alignment, how does minigraph estimate the per-base sequence divergence provided in the 'dv' tag?

Also, does minigraph use embedded path information in gfa files to help narrow down alignments?

lh3 commented 2 years ago

When not doing base-level alignment, how does minigraph estimate the per-base sequence divergence provided in the 'dv' tag?

Please see the minimap2 paper.

Also, does minigraph use embedded path information in gfa files to help narrow down alignments?

No, it doesn't.