Is there a filter_samples_from_otu_table.py in QIIME2?

[ErikaGanda]

It would be really useful to have a script like that.
If there isn’t a option like that, how should I proceed to make sub-tables of my main dataset for further analysis?

Also, something like http://qiime.org/scripts/index.html for QIIME2 would be very much appreciated.

Thank you

Erika

[gregcaporaso]

Hi @ErikaGanda,
You can use the filter-samples method in the feature-table plugin. This was introduced in QIIME 2.0.6. If you’re using the command line interface, the command would be:

qiime feature-table filter-samples

We’re working on a tutorial now that will illustrate examples of using this script (you can track progress on this here). In the meantime, just follow up here if you have questions about how to use it.

We’re also planning to add a page similar to the QIIME 1 script index - thanks for the suggestion!

Greg