BioBloom Tools assigns reads to different references using bloom filters. This is faster than alignment and can be used for contamination detection.
BioBloom Tools (BBT) provides the means to create filters for a given reference and then to categorize sequences. This methodology is faster than alignment but does not provide mapping locations. BBT was initially intended to be used for pre-processing and QC applications like contamination detection, but is flexible to accommodate other purposes. This tool is intended to be a pipeline component to replace costly alignment steps.
File search patterns
biobloomtools: contents: filter_id hits misses shared rate_hit rate_miss rate_shared num_lines: 2