

qiime2_2021.11.sif tools import --type 'SampleData[PairedEndSequencesWithQuality]' --input-path File_list.tsv --output-path ASV.qza --input-format PairedEndFastqManifestPhred33V2

qiime2_2021.11.sif dada2 denoise-paired --i-demultiplexed-seqs ASV.qza --p-trunc-len-f 180 --p-trunc-len-r 120 --p-chimera-method 'consensus' --p-n-reads-learn 1000000 --p-hashed-feature-ids TRUE --o-table ASV_table.qza --o-representative-sequences ASV_sequences.qza --o-denoising-stats denoising-stats_ASV.qza --verbose

qiime2_2021.11.sif tools export --input-path  denoising-stats_ASV.qza --output-path  dada2_output

qiime2_2021.11.sif tools export --input-path ASV_table.qza --output-path dada2_output

qiime2_2021.11.sif tools export --input-path ASV_sequences.qza --output-path dada2_output


