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fqzcomp | Compression of FASTQ and SAM format sequencing data

Compresses FASTQ files. fqzcomp uses a public domain byte-wise arithmetic coder. The software split FASTQ data into sequence identifiers, basecalls and quality scores, compressing the streams independently and in most cases in parallel. It compresses identifiers by using the previous identifier as a context to predict the current one. The identifier is tokenised into {type, value} pairs with type being one of alpha, numeric, leading zeros or punctuation (including spaces).

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fqzcomp forum

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fqzcomp classification

fqzcomp specifications

Unique identifier:
OMICS_00957
Interface:
Command line interface
Input format:
FASTQ
Programming languages:
C
Computer skills:
Advanced
Stability:
Beta
Software type:
Application/Script
Restrictions to use:
None
Operating system:
Unix/Linux
License:
BSD 3-clause “New” or “Revised” License
Version:
4.6
Maintained:
Yes

fqzcomp distribution

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fqzcomp support

Maintainer

  • James Bonfield <>

Credits

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Publications

Institution(s)

Wellcome Trust Sanger Institute, Cambridge, UK; Dell Inc., Round Rock, TX, USA

Funding source(s)

Supported by the Wellcome Trust [098051] and Dell Inc.

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