Package: bbmap (38.90+dfsg-1)

[ Source: bbmap  ]

short read aligner and other bioinformatic tools

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.

BBMap is multithreaded as well as the other tools bundled into this package for instance:

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.

Other Packages Related to bbmap

• dep: libmpj-java

  Java library for parallel applications for multicore processors and clusters

• rec: pigz

  Parallel Implementation of GZip

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Architecture	Package Size	Installed Size	Files
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