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Precondition: The array pointer points to a valid non-NULL array in memory, and that array contains at least 'length' elements.
Precondition: The array pointer points to a valid non-NULL 2-D array in memory, and that array contains at least the given number of rows/columns.
Each pre-built per chromosome feature can be quickly loaded into a binned array in memory to support rapid lookup of any location in the chromosome and identify features within a given window size of the lookup location.
As stated in Section "Construction algorithm", when constructing the 1 Bloom structure, the only part written on the disk is T1 and it is read only once to fill an array in memory.
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Long input string is chopped in smaller units and builds suffix arrays in memory and dumps onto the disk.
For comparison, existing forward simulators are limited by the amount of sequence that can be stored in arrays in memory: for the aforementioned 20 000 individuals, 16 GB of memory would permit the storage of only 3.2 million base pairs of sequence per individual, which is an order of magnitude smaller than the smallest human chromosome.
We defined each sample table as an array of unsigned chars and stored each array in flash memory, filling 12kB of memory on top of our program code.
Apart from merely holding the arrays' data in memory, parallelization is needed to process those huge arrays within reasonable time.
We take the code snippet from our image processor and include it in variable declarations storing the array in program memory.
The threads are grouped in blocks, and each thread updates a temporary array in shared memory with the contributions read in (mathrm {coeffs}[J[j]]).
The lack of spatial locality within the features in the SoA representation is illustrated in Figure 4; here, the SoA layout (on the left) stores pixels features in discontiguous 2D arrays (distant in memory) while for the AoS representation (on the right) features belonging to the same pixel are gathered together in contiguous memory addresses.
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CEO of Professional Science Editing for Scientists @ prosciediting.com