I am very new to QIIME, and while trying to import files I am facing this error:
manifest.csv is not a(n) PairedEndFastqManifestPhred33 file
qiime tools import
I dont realy know what is the meaning of your error, but assuming you are using Qiime2 2018.8 your code is wrong try this:
qiime tools import \ --type 'SampleData[PairedEndSequencesWithQuality]' \ --input-path pe-33-manifest \ --output-path paired-end-demux.qza \ --input-format airedEndFastqManifestPhred33
Source: Importing data
Invisible characters can cause issues with this file — see these posts and let us know if you are still having trouble (with details on your troubleshooting) after giving those a try. Thanks!
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