We're looking into using
bcl-convert as an alternative for
Picard wrt "UMI aware" demultiplexing.
Picard can demultiplex straight to bam with the UMI in the correct
RX tag. bcl-convert appends the UMI sequence to the fastq header line when using the
I'm looking for a way to get the UMI sequence from the fastq header into the sam
RX tag (with or without alignment). I've already looked into fgbio, umi-tools, umis; but none of these tools seem to be able to handle the output format from
Does anyone have a suggestion?