bbmap - 39.06+dfsg-1 main

The BBTools are a collection of small programs to solve recurrent
tasks for the creative handling of short biological RNA/DNA sequences.
This suite may be best known for its mapper, which is also the name of
the project on sourceforge, but several tools have been added over time.
All tools are multi-threaded, implemented platform-independently in Java:
.
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.
.
BBNorm: Kmer-based error-correction and normalization tool.
.
Dedupe: Simplifies assemblies by removing duplicate or contained
subsequences that share a target percent identity.
.
Reformat: Reformats reads between fasta/fastq/scarf/fasta+qual/sam,
interleaved/paired, and ASCII-33/64, at over 500 MB/s.
.
BBDuk: Filters, trims, or masks reads with kmer matches to an
artifact/contaminant file.