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This table is kept in memory for fast access (we opted for storing the table in memory since the volume of data to store for each client is small and the cost of memory is decreasing).
SSAHA[8], which creates a database hash table in memory to accelerate search functions and was thus expected to perform reasonably well, is optimized to find longer alignments and fails in practice on most of the criteria set out above.
Sig-mer counting Because the number of sig-mers used in RNA-Skim is much smaller than the number of k-mers typically used by other k-mer-based approaches, all sig-mers can be stored in a hash table in memory.
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Compared with the methods in [30, 33], the proposed method only needs several FFTs and to store several basis convolution kernels and look-up-tables in memory.
We created an accelerated version of Unafold that ran more than ten times faster by using more efficient data structures and caching thermodynamic parameter tables in memory rather than reloading them for each probe.
The biom-format software package has been designed with three main objectives: to be a central repository for objects that support BIOM-formatted data in different programming languages, to have minimal external dependencies, and to provide an efficient means for representing biological contingency tables in memory along with convenient functionality for operating on those tables.
As for the implementation issue of an arctangent function, the use of look-up table stored in memory perhaps is attractive for high-speed arctangent computation.
For fast performance, the implementation of SSAHA or BLAT keep the index or the hash table in the memory.
Current processors are able to store relatively large lookup tables in cache memory.
The compressed table is stored in memory.
Assume that the process page table is completely in memory when the process is running.
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