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This is being reported by users as turning up in data, which will cause problems for any data which validates the input matches the specifications. The default from DRAGMAP should be ILLUMINA. This field is a controlled vocabulary, designed to allow users to tune their algorithms to the type of data being generated. The PM field (Platform Model) is more flexible and permits additional machine details.
The SAM header
@RG
sub field "PL" is listed asPL0
atDRAGMAP/src/include/sam/SamGenerator.hpp
Line 173 in 2e0ec68
This is being reported by users as turning up in data, which will cause problems for any data which validates the input matches the specifications. The default from DRAGMAP should be
ILLUMINA
. This field is a controlled vocabulary, designed to allow users to tune their algorithms to the type of data being generated. ThePM
field (Platform Model) is more flexible and permits additional machine details.Reported via samtools/hts-specs#679
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