qiime2019.7 in Conda
I have been trying to clean my data since I had terrible taxa classification for my 18S samples from extremophile enviroment. My objetive was to identify the OTU IDs and their freccuency for each sample. As in the taxa bar plot you only get the frecuency of a given taxa.
For this I filtered with
qiime taxa filter-table
qiime taxa filter-table --i-table ../../03.ClusteredData/99_table-dn.qza --i-taxonomy taxonomy-without-spaces.qza --p-include D_0__Eukaryota --o-filtered-table filtered_table
later I exported it with
qiime tools export and converted It to tsv with
What I finally obtain It’s a table with that I undertand Its every OTU ID that contains “D_0__Eukaryota” and the frecuency of that OTU in every sample.
My question is the following: Is my strategy correct?, and what does that frecuency exacltly mean?