I have been provided 2 clean different files for each of my 16s results samples. They are filename.effective.fastq.gz and filename.fna.gz. Firstly, I don’t know which is best for me to analyse?
I am trying to use the QIIME 2: tools import and data as a QIIME 2 artifact.
I made a collection of some of my files.
On qimme2 tools import, I tried sample data paired end sequences with quality.
This error appeared
“This job was terminated because it used more memory than it was allocated.”
I believe I need to adjust an input or parameter problem before I try again.
What should I try next? If there is anymore information you need please let me know?
And at the Qiime2 website here → How to import data for use with QIIME 2 - Microbiome marker gene analysis with QIIME 2. The command line tools will work about the same in Galaxy so the original guides are useful to learn what is going on inside of the artifacts, and how the artifacts are originally constructed, and why certain data information (such as the full sequence and file names) are important.
So, for the issue here, the problem was likely the file names.
And, for your question here, you could explore other tool suites? Our tutorials include workflows, too, that could be customized.
The Qimme2 tools can be a bit complicated due to the artifact data structures, instead of the native data collection folder formats usually used in Galaxy.
This tutorial category at the GTN Training site contains appropriate analysis examples for your data. → Microbiome / Tutorial List
Or, you can explore with a search term like this → GTN Materials Search (query=16s)
This would be a good place to start!
Most of these complete analysis pathways will require more than a single sample and a single reference sequence, but you can explore. Maybe some of the tools can be used independently to get you the information you want? You’ll need to review to see if these will work for your goals.
GTN Training site contains appropriate analysis examples for your data. → 