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ReQON

Recalibrates base quality scores using logistic regression. ReQON is an R package that generates diagnostic plots showing the effectiveness of recalibration. It produces a file with accurate quality scores, which can improve the results of downstream analysis. It also attempts to separate out mismatches due to alignment by identifying and removing bases from the training set.

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ReQON forum

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ReQON classification

ReQON specifications

Unique identifier:
OMICS_26078
Software type:
Application/Script
Restrictions to use:
None
Output format:
BAM
Programming languages:
R
Computer skills:
Advanced
Requirements:
Rsamtools, seqbias
Name:
Recalibrating Quality Of Nucleotides
Interface:
Command line interface
Output data:
BAM
Operating system:
Unix/Linux, Mac OS, Windows
License:
GNU General Public License version 2.0
Stability:
Stable
Maintained:
Yes

ReQON distribution

versioning

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ReQON support

Documentation

Maintainer

  • D. Neil Hayes <>

Credits

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Publications

Institution(s)

Department of Statistics and Operations Research, Chapel Hill, NC, USA; Renaissance Computing Center, Chapel Hill, NC, USA; Lineberger Comprehensive Cancer Center, Chapel Hill, NC, USA; Department of Genetics, Chapel Hill, NC, USA; Department of Internal Medicine, Division of Medical Oncology, Multidisciplinary Thoracic Oncology Program, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA

Funding source(s)

Supported by the National Institutes of Health [U24 CA143848; U24 CA143848-02S1; F32 CA142039] and the National Institute on Drug Abuse [1R01 DA030976-01].

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