Hi, I have to process data from this qiita project: https://qiita.ucsd.edu/study/description/11052#. As no raw data in available I have downloaded preprocessed.fastq.gz from the demultiplexing triangle. However I am struggling since 3 days how to put it into a qiime artefact. As far as I know fastq.gz file should be demultipelxed file however I have only ONE fastq.gz file that looks like this
@11052.1.10.14.rk.t_8590 orig_bc=ACTTAGCTTGCA new_bc=ACTTAGCTTGCA bc_diffs=0
I tried using qiime2 cutadapt but it gives very short sequences. I tried importing it into qiime as SampleData[SequencesWithQuality] but I am getting an error: Missing one or more files for SingleLanePerSampleSingleEndFastqDirFmt: '.+_.+_L[0-9][0-9][0-9]_R[12]_001\.fastq\.gz'.
I know that older versions of qiime supported extract_barcodes.py option but its now unavailable. What should I do? Should I demultiplex those samples? If yes I have barcodes only in csv file not in fastq. I will be super thankful for any help.
