I had to create a new topic with my question because the last topic with similar characteristics was closed (“Feature-table filter-features keep samples for heatmap”). After I filter my samples from features with less than 2 counts the script that I used removes automatically samples with zero counts. However, for the taxa plot, I need these samples to show the differences between different extraction methods used in my experiments. From the previous topic, @Nicholas_Bokulich generated a request to update this function and have the option to choose whether the samples with zero counts were removed or not (https://github.com/qiime2/q2-feature-table/issues/184#issue-349261391). I would like to know if that was implemented or not because I have look and I don’t seem to find anything like this. Is there any other function that would allow this?.
This is the script I am using:
qiime feature-table filter-features