Dear all,
I have found the modification of SAM/BAM file headers quite cumbersome and time-consuming, so I wonder if it is planned to include an option into BWA to specify header fields before starting the alignment, or if there is a supereasy, superfast way of adding header lines to a SAM or BAM file without overwriting the beginning of the alignment?
Currently I am splitting the output SAM file into header and alignment, modifying the header, and concatenating them back together. This needs about 15 minutes for a 40 million reads SAM-file, which seems a bit much knowing that I only want to add a couple of alignment info lines.
Many thanks!
I have found the modification of SAM/BAM file headers quite cumbersome and time-consuming, so I wonder if it is planned to include an option into BWA to specify header fields before starting the alignment, or if there is a supereasy, superfast way of adding header lines to a SAM or BAM file without overwriting the beginning of the alignment?
Currently I am splitting the output SAM file into header and alignment, modifying the header, and concatenating them back together. This needs about 15 minutes for a 40 million reads SAM-file, which seems a bit much knowing that I only want to add a couple of alignment info lines.
Many thanks!
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