Example demonstrates search in DNA sequence.
1. Download a FASTA file.
We recommend to use human chromosome 1, since it is big enough (250 million base pairs, or approximately 8% of human genome).
2. Build
For a regular in-place incidental Linux or MacOS build you can use
./build_all.sh
This will compile regular, SSE4.2 and AVX2 versions
3. Run benchmarking cases:
- search for low frequency words:
./xsample04 -fa NC_000001.11.fa -s l -t
- search for high frequency words:
./xsample04 -fa NC_000001.11.fa -s h -t