Reads joining questions

Hi, I cheched the Atacama tutorial because I’m working with Paired-end reads and I have some questions:
I have imported fastq files containing the forwards and reverse sequences with the following comand: qiime tools import
–type ‘SampleData[PairedEndSequencesWithQuality]’
–input-path pe-64-manifest
–output-path paired-end-demux.qza
–input-format PairedEndFastqManifestPhred33

Next Do I need to Join the reads following the comand from the tutorial “Alternative methods of read-joining in QIIME 2”?
Or Do I follow the “Atacama” tutorial that don’t ferform the joing of the reads?
Thank you for your kind help

Please read the following before posting!

Is this post about a User Support Question? Those include questions about specific results while running QIIME 2, warnings observed while running a QIIME 2 command. Please do not post questions here that have to do with interpretation of results, general discussion, or technical support.

Before posting, please make sure you have the following information available, in order for us to help you in a timely manner:

  • Have you searched for the problem on the forum? It is rare that we see a new question asked, so make sure you do your homework before asking for us to commit our time to helping you.
  • Have you reviewed the QIIME 2 Forum Glossary?
  • Version of QIIME 2 you are running, and how it is installed (e.g. Virtualbox, conda, etc.)
  • What is the exact command or commands you ran? Copy and paste please.
  • What is the exact error message, if applicable? If you didn’t run the command with the --verbose flag, please re-run and copy-and-paste the results.
1 Like

If you will follow the protocol one of the next steps will be denoising with DADA2. At this step your reads will be joined, so if you don’t have other aims you can just proceed with the protocol. Another good and detailed tutorial is “Moving Pictures”


Ok, I’ll try that, thank you!

This topic was automatically closed 31 days after the last reply. New replies are no longer allowed.