Transforming MEGAN output with Krona

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4.2 years ago

nisrinalulu ▴ 10

Dear Everyone,

I hope you all doing well. I have a question for using Krona with MEGAN output. I already export csv from MEGAN with taxon_name to taxon_id with tab separator to input that csv file in Krona using ktImportTaxonomy https://github.com/marbl/Krona/wiki/Importing-from-supported-tools

I run ktImportTaxonomy with this command line:

ktImportTaxonomy -t 2 -s 3 Healthy_A.txt -o Healthy_A.html

and then I got this message:

Loading taxonomy...
Taxonomy not found in /home/lulunisrna/anaconda3/opt/krona/taxonomy. Was updateTaxonomy.sh run? at /home/lulunisrna/anaconda3/opt/krona/scripts/../lib/KronaTools.pm line 1376.

How to solve this problem? I used KronaTools 2.7 and installed it trough conda.

Thank you for your help.

Regards,

Lulu

metagenomics krona megan • 1.6k views

ADD COMMENT • link updated 3.9 years ago by Biostar 20 • written 4.2 years ago by nisrinalulu ▴ 10

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Was updateTaxonomy.sh run?

ADD REPLY • link 4.2 years ago by cpad0112 21k

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I didn't do anything after install Krona via conda

ADD REPLY • link 4.1 years ago by nisrinalulu ▴ 10

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