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importing data into Qiime2

I am not able to understand how do we import data into Qiime2. Pair end reads do not contain barcode.

In Qiime 1 we, just use split_libraries.fastq.py and we need as input: mapping txt file, sample ID and joined pair end reads for each sample,

How do we perform this step in QIIME2: Do we need pair-end read data into R1 and R2 format and manifest.csv to explain reads sample id and read name and orientation with the path.

How do we know about source format? In Qiime 2, do we not joined R1 and R2 reads based on overlap? and How de we know read with or without quality format?

SampleData[PairedEndSequencesWithQuality] ????

qiime tools import \
  --type 'SampleData[PairedEndSequencesWithQuality]' \
  --input-path /project/microbiome_workshop/amplicon/data/manifest.csv \
  --output-path demux.qza \
  --source-format PairedEndFastqManifestPhred33

Thanks

next-gen
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updated by Biostar Biostar • written by Bioinfonext Bioinfonext

Please read the how-to on post types. Quote from the link:

Remember, if you're looking for a tool or for help with a tool, you have a Question, not a Tool - it's commonly confused, but please be informed of the difference

This is a Question type post, not a Tool - I've made the necessary change this time.

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written by Ram Ram

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