Hi everyone, I am new in Qiime2 and I am trying to analyze my MiSeq data which is already demultiplexed. I have 40 samples, each sample has its forward.fastq.gz and reverse.fastq.gz file but I have no barcode.fastq.gz since the sequences are demultiplexed. I following the Atacama soil tutorial I as…

Hi @Fred ! Glad to hear @colinbrislawn 's advice got you moving forward! You can create a visualization from of your demuxed sequences by using the demux summarize visualizer! :tada: qiime demux summarize \ --i-data paired-end-demux.qza \ --o-visualization paired-end-demux.qzv Give that a shot …

Good morning Fred, Because you have a pair of reads for each sample (forward and reverse), I think the fastq manifast format might be a good fit for your data. This format does not need barcodes if your reads are already split between samples. Try processing your data set using that command, and l…

Hi Colin, Many thanks for you reply. I finally got my sequences joined in the file paired-end-demux.qza. However I would like to get an idea of the quality of the sequences aligned and if any sequences have been discarded. I can not visualize any .qza file. Is it possible to conveert .qza files int…

Hi thermokarst! Many thanks!!!.

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How to start with demultiplexed paired end MiSeq data analysis?

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summarize, demux, import

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