Suite of tools for high-speed read processing and sequence analysis
Brian Bushnell's tools for manipulating reads
bbduk.shbbmap.shbbnorm.shdedupe.shfilterbyname.shreformat.shstatkey.shtadpole.sh$ bbduk.sh in=reads.fastq out=cleaned.fastq ref=adapters.fa ktrim=r k=23 mink=11 hdist=1 tpe tbo$ bbmap.sh ref=reference.fasta in=reads.fastq out=mapped.sam$ bbnorm.sh in=reads.fastq out=normalized.fastq target=100 mindepth=5