Hifi 16S analysis

Hello everyone, am trying to analyse 16S Pacbio sequence from a chicken experiment and am getting very low input non chimera percentage. Can someone help me? The output is attached
dada2-ccs_stats.qzv (1.2 MB)

Hi @oluwatobi,
Can you please share the command you used to get this output so I can see what parameters you are using?

Thank you for the reply.
qiime dada2 denoise-ccs --i-demultiplexed-seqs ./tobi.qza
--o-table dada2-ccs_table.qza
--o-representative-sequences dada2-ccs_rep.qza
--o-denoising-stats dada2-ccs_stats.qza
--p-min-len 1000 --p-max-len 1600
--p-n-threads 4


Summarizing denoised statistics

qiime metadata tabulate --m-input-file ./dada2-ccs_stats.qza
--o-visualization ./dada2-ccs_stats.qzv

Hi @oluwatobi,
Can you also send me your demux.qzv. I am suspecting that your issue is not the chimeric filter but the denoising and filtering steps before the chimeras are filtered out.

tobi.demux.summary.qzv (314.2 KB)