QualComp – Lossy Compression algorithm for Quality Scores

QualComp

:: DESCRIPTION

QualComp is a lossy compression algorithm for the quality scores presented in a FASTQ file.

::DEVELOPER

Tsachy (Itschak) Weissman

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux
  • C COmpiler

:: DOWNLOAD

QualComp

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2013 Jun 8;14:187. doi: 10.1186/1471-2105-14-187.
QualComp: a new lossy compressor for quality scores based on rate distortion theory.
Ochoa I1, Asnani H, Bharadia D, Chowdhury M, Weissman T, Yona G.

libCSAM – Lossy Compression of Quality Scores in Genomic data

libCSAM

:: DESCRIPTION

libCSAM will contain several C++ codes for compress,decompress, and access each of the fields of any SAM format file.

::DEVELOPER

Rodrigo Cánovas

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • C++ Compiler

:: DOWNLOAD

 libCSAM

:: MORE INFORMATION

Citation

Bioinformatics. 2014 May 2.
Lossy compression of quality scores in genomic data.
Cánovas R1, Moffat A, Turpin A.

QVZ / QVZ2 0.1 – A Lossy Compressor for Quality Scores in Genomic Data

QVZ / QVZ2 0.1

:: DESCRIPTION

QVZ (Quality Value Zip) is a lossy compression algorithm for storing quality values associated with DNA sequencing.

::DEVELOPER

Greg Malysa, Mikel Hernaez, Idoia Ochoa, Milind Rao, and Karthik Ganesan at Stanford University.

:: SCREENSHOTS

N/a

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 QVZ / QVZ2

:: MORE INFORMATION

Citation

QVZ: lossy compression of quality values.
Malysa G, Hernaez M, Ochoa I, Rao M, Ganesan K, Weissman T.
Bioinformatics. 2015 May 28. pii: btv330.

YALFF v0.1.0 – Yet Another Lossy Fastq Filter

YALFF v0.1.0

:: DESCRIPTION

YALFF is a tool for quality scores compression by smoothing leading to improved compressibility of FASTQ files.

::DEVELOPER

Matteo Comin

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

YALFF

:: MORE INFORMATION

Citation

BMC Bioinformatics, 20 (Suppl 9), 302 2019 Nov 22
Better Quality Score Compression Through Sequence-Based Quality Smoothing
Yoshihiro Shibuya, Matteo Comin