I’ve got a single fastq file containing 16S RNA Illumina MiSeq V4 paired end sequences that I need to split by sample for a meta-analysis. The author of the paper provided me with a qiime mapping file that contains the sample ID, barcodes and linker primer sequences that would split the fastq file by sample in qiime1 using the split_sequence_file_on_sample_ids.py command. However, I am unable to install qiime1 on my server as it uses an older version of conda. Therefore, I want to use qiime2 to split the fastq file by sample instead but there doesn’t seem to be an equivalent command after looking through the tutorials. I’m a complete novice when it comes to qiime1/2 and I’ve looked on the forum but I can’t seem to find anyone else who has run into this specific problem.
Can anyone help?
Thanks in advance.