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tseemann avatar tseemann commented on July 21, 2024

@danielecook which command did you use to demux?

Usage:   seqtk <command> <arguments>
Version: 1.0-r82-dirty

Command: seq       common transformation of FASTA/Q
         comp      get the nucleotide composition of FASTA/Q
         sample    subsample sequences
         subseq    extract subsequences from FASTA/Q
         fqchk     fastq QC (base/quality summary)
         mergepe   interleave two PE FASTA/Q files
         trimfq    trim FASTQ using the Phred algorithm

         hety      regional heterozygosity
         gc        identify high- or low-GC regions
         mutfa     point mutate FASTA at specified positions
         mergefa   merge two FASTA/Q files
         dropse    drop unpaired from interleaved PE FASTA/Q
         rename    rename sequence names
         randbase  choose a random base from hets
         cutN      cut sequence at long N
         listhet   extract the position of each het

from seqtk.

danielecook avatar danielecook commented on July 21, 2024

Haha - I have no idea. This was a while ago - so I either confused this with another tool or I used this to remove the indices after demultiplexing. I've since switched to using trimmomatic, however.

from seqtk.

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