@kindergarten i have successfully imported my data and garnered the paired-end-demux.qza file but when i going for dada2 analysis, the following command was run (Since i have paired end 250 reads)
qiime dada2 denoise-paired
--i-demultiplexed-seqs paired-end-demux.qza
--p-trim-left-f 13
--p-trim-left-r 23
--p-trunc-len-f 245
--p-trunc-len-r 240
--o-table table.qza
--o-representative-sequences rep-seqs.qza
--o-denoising-stats denoising-stats.qza
after that i got error please see the screen shot last command.
Hello @SAMRENDRA01, can you please rerun the command with the --verbose flag then copy-paste the entire output here? Thank you.
Hi @Oddant1 i have tried this command
qiime dada2 denoise-paired
--i-demultiplexed-seqs paired-end-demux.qza
--p-trim-left-f 9
--p-trim-left-r 9
--p-trunc-len-f 250
--p-trunc-len-r 250
--o-table table.qza
--o-representative-sequences rep-seqs.qza
--o-denoising-stats denoising-stats.qza
--verbose
and I got same error
The key line in that error is
Mismatched forward and reverse sequence files: 0, 89882.
It looks like you have 0 forward reads and 89882 reverse reads. It looks to me like there might be something wrong with your forward reads. I'm not positive what the issue is though.
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Can you post your demux.qzv? It seems like something went wrong during demultiplexing, and you didn't get your forward reads.
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