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adriantich / DnoisE

Distance denoise by Entropy
GNU General Public License v3.0
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Is it applicable to Ion Torrent data sets #16

Closed najouamghazli closed 2 years ago

najouamghazli commented 2 years ago

Hi,

I would like to know if your method can apply to COI metabarcoding data sets resulting from Ion Torrent sequencing technology.

Regards,

Najoua

adriantich commented 2 years ago

Hi Najoua, We have not still tested DnoisE with Ion Torrent data. However I think the DnoisE algorithm can be usefull. Our correction aproach is based on the Edgar's formula for Unoise. If you find a better correction equation you can change the DnoisE code to fit your own findings. You can edit lines 393, 496, 578, 683, 773, 892, 990, 1110 of the denoise_functions.py script. You'll see that they are almost identical and correspond to Edgar's formula. If you want to use DnoisE with your modifications I can help you to rewrite the code if necessary. Hope to hear from you soon! Adrià