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vincentgarin / mppR

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Data Preparation for MAGIC population #8

Open yan-cheng-lin opened 1 year ago

yan-cheng-lin commented 1 year ago

Dear Vincent,

Thank you for the useful software. I am currently working on an eight-founder MAGIC maize DH population for my PhD. I would like to conduct mapping with this mppR. However, I can not find the instruction about the coding of pedigree information cross.ind and par.per.cross for a MAGIC population, which can parents are all the 8 founders. Do you know here I can get more information about it?

Best regards, Yan-Cheng

vincentgarin commented 1 year ago

Dear Yan Cheng,

mppR is only handling population composed of crosses like NAM, diallel, factorial design or breeding populations but no populations with further intercrossing.

For MAGIC population I suggest to look at statgenMPP R package or rqtl/2

Good luck, Vincent

Le mar. 2 mai 2023 à 17:22, YanCheng @.***> a écrit :

Dear Vincent,

Thank you for the useful software. I am currently working on an eight-founder MAGIC maize DH population for my PhD. I would like to conduct mapping with this mppR. However, I can not find the instruction about the coding of pedigree information cross.ind and par.per.cross for a MAGIC population, which can parents are all the 8 founders. Do you know here I can get more information about it?

Best regards, Yan-Cheng

— Reply to this email directly, view it on GitHub https://github.com/vincentgarin/mppR/issues/8, or unsubscribe https://github.com/notifications/unsubscribe-auth/ADMXNGZKRWQ4AABNQ2JRR5LXEDYO7ANCNFSM6AAAAAAXS54TPA . You are receiving this because you are subscribed to this thread.Message ID: @.***>

yan-cheng-lin commented 1 year ago

Hi Vincent,

Thank you for the quite reply, it's a shame that I couldn't use it! I already read about statgenMPP and r/qtl2, but none of them had developed QTL detection for G by E.

Thanks again, and good luck too.

Best regards, Yan-Cheng