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Chimeric reads identification and removal

I am thinking to use "identify_chimeric_seqs.py" from QIIME package (method - blast_fragments) for chimeric reads removal.

Can someone let me know where can I find the input files?

identify_chimeric_seqs.py -i repr_set_seqs.fasta -t taxonomy_assignment.txt -r ref_seq_set.fna -m blast_fragments -o chimeric_seqs_blast.txt

Where can I find below files?:

repr_set_seqs.fasta taxonomy_assignment.txt ref_seq_set.fna chimeric_seqs_blast.txt

I have paired end 16s rRNA data (QC checked, trimmed and stiched using FLASH).

Thanks

qiime chimera

1 answer

You can get from the script split_library_fastq

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