Hi,
I did the cat as you say.
One of the projects was verified with validate_demultiplexed_fasta.py
But the other one was not because it came out of the sequencer already demuxed. So no mappling file (two files per sample - paired data)
The headers look like (for the demuxed data_:
>Sample29_S29_L001_R1_001_0 M02585:44:000000000-ARTCH:1:1101:19866:1629 1:N:0:29 orig_bc=AAAAAAAAAAAA new_bc=AAAAAAAAAAAA bc_diffs=0
So it makes some sense to me. Also I do get the correct sample names on the biom file.
I used for the one that was demuxed:
multiple_split_libraries_fastq.py -i join_pairs/ -o seqs --demultiplexing_method sampleid_by_file --include_input_dir_path --remove_filepath_in_name
Thanks a lot for your help,
Tiago