Using Nanophore reads for Mitochondrial Genome assembly

[Millawati]

Hi, can we use Nanophore reads for the Mitochondrial genome assembly using Novoplasty? Or it still only for Illumina data?

[ndierckx]

Only for Illumina data, do you want to combine short and long or only long?
Will soon have a targeted long read assembler available: https://github.com/ndierckx/NOVOLoci

[Millawati]

Hi, Thank you for your respond. We want combine both short and long. Is there any assembler you can you suggest?

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On Fri, 24 Nov 2023 at 9:31 AM, Nicolas Dierckxsens < ***@***.***> wrote: Only for Illumina data, do you want to combine short and long or only long? Will soon have a targeted long read assembler available: https://github.com/ndierckx/NOVOLoci — Reply to this email directly, view it on GitHub <#215 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/BEGIWN2LSS3PHBPC5P3QOI3YF72IDAVCNFSM6AAAAAA7XJDYNKVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTQMRVGA2DMMRRGY> . You are receiving this because you authored the thread.Message ID: ***@***.***>

[ndierckx]

Don't think there are many, can't think of any at the moment, ask google :)

I will include long reads to NOVOPlasty in the future, but don't have the time the next few months to finish it.
I have an unpublished version that is not ready to make public, I just helped someone for one assembly:
https://www.mdpi.com/1422-0067/24/4/3976

But doesn't the assembly work with only short reads, or is it a plant mitochondrial genome?

[Millawati]

Alright. Thank you for your help. Really appreciate it.

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On Fri, 24 Nov 2023 at 10:19 PM, Nicolas Dierckxsens < ***@***.***> wrote: Don't think there are many, can't think of any at the moment, ask google :) I will include long reads to NOVOPlasty in the future, but don't have the time the next few months to finish it. I have an unpublished version that is not ready to make public, I just helped someone for one assembly: https://www.mdpi.com/1422-0067/24/4/3976 But doesn't the assembly work with only short reads, or is it a plant mitochondrial genome? — Reply to this email directly, view it on GitHub <#215 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/BEGIWN7OY7U337JE6SKBO73YGCUGRAVCNFSM6AAAAAA7XJDYNKVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTQMRVG42DANRXGI> . You are receiving this because you authored the thread.Message ID: ***@***.***>