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fbreitwieser / krakenuniq

🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results
GNU General Public License v3.0
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Inquiry about "dup" in the report #68

Open c11cc opened 4 years ago

c11cc commented 4 years ago

Hello,

Thank you for providing such a powerful tool for mNGS analysis. I have a puzzle in the using process.

I found that "dup" in the report can be useful as the false positives usually have high dup value. It is said that " dup is the average time each k-mer has been seen", but I still don't know how it is calculated. Could you please give some example ?

Besides, I am wondering how the "kmer value" in the report is calculated. For example , is it the the sum of 45+45+39+30 for the 1000000022 shown in the figure?

image

Thanks

c11cc commented 4 years ago

It seems that the figure cannot be loaded, it is like this: C kraken:taxid-439481-NC_013926.1-13197 1000000022 151 1000000022:45 A:31 1000000022:45 C kraken:taxid-439481-NC_013926.1-13195 1000000022 151 0:6 1000000022:39 A:31 1000000022:30 A:15