How I will import Combined R1.fastq and R2.fastq files into QIIME2?

User Support
7

Hi @Aqleem12, I have a few questions to help us with diagnosis:

  1. It sounds like you are using the PHRED 64 offset format --- are you sure your data is in this format? PHRED 33 seems to be much more common now, but we do still see PHRED 64 with legacy data. If you don't know, I would suggest starting with PHRED 33.
  2. Can you provide the file (either attach or copy and paste the contents) of the file you named pe-64-manifest?
  3. Can you provide a screenshot of the directory (or directories) with your sequence data? That way we have a general idea of file layout and naming - these values are very important when using the Manifest Formats.
  4. What is the location of your sequences directory on your computer? You can run the command pwd when your terminal is open in that location and provide the results here.

Thanks!