I wanted to use 'balance-taxonomy' action from gneiss qiime2 plugin. But it seems that its discontinued. Could you please suggest the alternative command. My original command is pasted below:
[email protected]:~/Rupesh/Suzanne/aqua_fastq/qiime2$ qiime gneiss balance-taxonomy --i-table table-silva-nc-wobl-no-mitochondria-no-chloroplast.qza --i-tree hierarchy.qza --i-taxonomy nc-wobl-trained-silva-taxonomy.qza --p-taxa-level 6 --p-balance-name 'y0' --m-metadata-file sample-metadata.tsv --m-metadata-column subject --o-visualization y0_taxa_summary.qzv
Error: QIIME 2 plugin 'gneiss' has no action 'balance-taxonomy'.
Many thanks in advance!
September 12, 2022, 6:03pm
Welcome back to the
You are correct - this method was depreciated in 2020. We do not currently have an alternative command - but details on why this was depreciated, along with our current recommendations can be found in this forum post:
Hello, I am using gneiss to determine taxonomy differentials between treatments with the balance-taxonomy command. It works well but I am receiving the following warning:
“balance-taxonomy is deprecated and will be removed in a future version of this plugin.”
Can you please tell me why this method is being discontinued, and what will replace it?
Hope this helps! Cheers
October 14, 2022, 12:04am
This topic was automatically closed 31 days after the last reply. New replies are no longer allowed.