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SCALCE | Boosting sequence compression algorithms using locally consistent encoding

A tool for compressing FASTQ files. SCALCE is designed specifically for the Illumina-generated FASTQ files, but supports any valid FASTQ with consistent read lengths. The SCALCE algorithm provides a new and efficient way of reordering reads generated by the HTS platform to improve not only compression rate but also compression run time.

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SCALCE forum

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SCALCE classification

SCALCE specifications

Unique identifier:
OMICS_00969
Software type:
Package/Module
Restrictions to use:
None
Operating system:
Unix/Linux
Computer skills:
Advanced
Maintained:
Yes
Name:
Sequence Compression Algorithm using Locally Consistent Encoding
Interface:
Command line interface
Biological technology:
Illumina
Programming languages:
C++
Stability:
Stable

SCALCE distribution

versioning

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No versioning.

Credits

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Publications

Institution(s)

School of Computing Science, Simon Fraser University, Burnaby, Canada

Funding source(s)

Natural Sciences and Engineering Research Council of Canada (NSERC); Bioinformatics for Combating Infectious Diseases Project (BCID); Michael Smith Foundation for Health Research grants; Canadian Research Chairs Program; an NIH grant HG006004

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.