Bbmap

• bbduk.sh(1) Filters, trims, or masks reads with kmer matches to an artifact/contaminant file
• bbmap.sh(1) Fast and accurate splice-aware read aligner.
• bbnorm.sh(1) Kmer-based error-correction and normalization tool
• bloomfilter.sh(1) Filters reads potentially sharing a kmer with a reference
• dedupe.sh(1) Simplifies assemblies by removing duplicate or contained
• reformat.sh(1) Reformats reads between fasta/fastq/scarf/fasta+qual/sam, interleaved/paired, and ASCII-33/64