This is pretty weird. I have been running Qiime pipeline and everything is running as expected until the last step of getting bar plots with the taxonomy.
- I did core matrix phylogenetics using the following command -
qiime diversity core-metrics-phylogenetic
Then after creating and training datasets from both SILVA and Greengenes I tried to create box plot using following command -
qiime taxa barplot
–i-table core_metrics_results/rarefied_table.qza \ (#I used filtered table here#)
But my taxa_bar_plots.qzv does not show any bar plots just a empty plot. I tried to save that files .CSV format through Qiime View server but it gave empty CSV file. The bar plot qzv file is not empty though. The size of this file is >9mb
I had to filter my rarefied_table using -
qiime feature-table filter-features
Can somebody please point out what might be happening?