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Deep: reduction in memory in --test and genounzip of Deep files: typically 10-20% less RAM consumption
Deep: new option: --deep=no-qual to Deep seq, qname only (not qual): consumes drastically less RAM, and generates a file of size in between compressing the FASTQ and BAM alone, and full Deep.
License: clarify the meaning of "Recognized Academic Research Institution"
BAM: further reduction in RAM consumption when compressing and uncompressing files with many secondary or supplementary alignments.