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The JEnsembl DNASequence classes are built upon BioJava3 DNASequence and extend the ProxySequenceReader interface to load, read and manipulate sequences.
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Because disk accesses are serial, most tools suffer from waiting times induced by loading reads into RAM and the caches.
The ustacks (unique stacks) program reads cleaned sequences and distills data into unique, exactly matching stacks by loading reads into a hash table.
The load reading were recorded at regular intervals of axial strain till the sample reached a peak value and started showing receeding values of load.
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For MZmine, first, the user needs to load and read the data, then define the peak detection parameter and in a third step, align the data.
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