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Using pychopper with DCS108 data #57

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alexey-larionov opened this issue Apr 27, 2021 · 1 comment
Open

Using pychopper with DCS108 data #57

alexey-larionov opened this issue Apr 27, 2021 · 1 comment

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@alexey-larionov
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I run the pychopper with DCS108 data.
I use DCS primers as provided by Nanopore:

VNP
ACTTGCCTGTCGCTCTATCTTCTTTTTTTTT
SSP
TTTCTGTTGGTGCTGATATTGCTGCCATTACGGCCGGG

Th sequences are taken from
https://community.nanoporetech.com/attachments/1459/download

I follow your example for custom primers usage:

cdna_classifier.py -m edlib -b custom_pimers.fas -c primer_config.txt input.fq full_length_output.fq

However, the pychopper output still includes line saying "Using kit: PCS109"

Why I still have this line ?
May I be sure that the correct DCS108 primers have been actually used ?

@nextgenusfs
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I think the primers are the same between the kits, so it should be okay.

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