bloomfilter

Bloom filters are space-efficient probabilistic data structures used to test whether an element is a part of a set. Bloom filters are primarily used in bioinformatics to test the existence of a k-mer in a sequence or set of sequences. https://en.wikipedia.org/wiki/Bloom_filters_in_bioinformatics

how to run?

There is a CLI interface that can be accessed by typing in the following command in your favorite terminal:

python3 bloomFilter --ref reference.fasta --query query.fasta --kmer $kmerLength --bloomsize $size

Reference and query should be fasta files, whereas kmerLength is the length of the sequences to be generated. Bloomsize is the size of the bit array