Chimeric reads identification and removal

Question

[lakhujanivijay]

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

Answer 1

[Picasa]

You can get from the script split_library_fastq