aidenlab / 3d-dna

3D de novo assembly (3D DNA) pipeline
MIT License
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Hifi and ONT behave differently in 3D-DNA(same species) #172

Open anxuan-web opened 1 year ago

anxuan-web commented 1 year ago

We assembled the genome if the same species using Hifi and ONT data, respectively, and both using Hic data to assist assembly. We find that there was some big rearrangement between the two genomes. For example, about 20M of the sequence in one chromosome is in a different location. 图片1

How do we choose? Which result is correct

anxuan-web commented 1 year ago

Blue represents the genome of the HIFI data assembly and green represents the ONT data.

dudcha commented 1 year ago

Use Juicebox assembly tools. You can find useful instructions on how to interpret contact maps in the Genome assembly cookbook hosted on dnazoo.org/methods. Best, -OlgaOn Jul 22, 2023, at 3:37 AM, anxuan-web @.***> wrote: Blue represents the genome of the HIFI data assembly and green represents the ONT data.

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