bbmap - 38.90+dfsg-1 main

BBMap: Short read aligner for DNA and RNA-seq data. Capable of handling
arbitrarily large genomes with millions of scaffolds. Handles Illumina,
PacBio, 454, and other reads; very high sensitivity and tolerant of
errors and numerous large indels.
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BBMap is multithreaded as well as the other tools bundled into this
package for instance:
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BBNorm: Kmer-based error-correction and normalization tool.
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Dedupe: Simplifies assemblies by removing duplicate or contained
subsequences that share a target percent identity.
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Reformat: Reformats reads between fasta/fastq/scarf/fasta+qual/sam,
interleaved/paired, and ASCII-33/64, at over 500 MB/s.
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BBDuk: Filters, trims, or masks reads with kmer matches to an
artifact/contaminant file.