demultiplexing fastq file in fastq files identified by tags

Question

[ieie]

Hi all,

I am trying to demultiplex one fastq file containing all the PacBio sequences with all the 36 tags forward and reverse in 36 files containing the sequences with the specific tags.

I have two questions, when we do this, do we look simultaneously for 5´ and 3´ tags and we keep only the sequences which have both tags or we can keep the sequences that have either 5´or 3´tags? About the mismatch, if I allow 1 mismatch it means I only admit one substitution in the barcode?

Thanks a lot for any answer!

Answer 1

[GenoMax]

If this is standard PacBio data use their demultiplexer lima (LINK).

[ieie]

Thanks, I will try it!