If possible to align by BWA mem2

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Xiao Dong

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Sep 1, 2019, 10:51:57 PM9/1/19
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Hi, since I have quite big data size, can I ask if it is possible to use BWA mem2 to align HiC data in Juicer step to save time for alignment? 

Neva Durand

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Sep 6, 2019, 2:09:25 PM9/6/19
to Xiao Dong, 3D Genomics
Hello,

It seems that mem2 is still a work in progress, but if you'd like to use it, just modify the aligner call in your Juicer script.

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Neva

On Sun, Sep 1, 2019 at 10:52 PM Xiao Dong <justd...@gmail.com> wrote:

Hi, since I have quite big data size, can I ask if it is possible to use BWA mem2 to align HiC data in Juicer step to save time for alignment? 

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Neva Cherniavsky Durand, Ph.D.
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