SHREC specifications

Information


Unique identifier OMICS_01110
Name SHREC
Alternative name Short Read Error Correction
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
License GNU General Public License version 2.0
Computer skills Advanced
Version 2.2
Stability Stable
Maintained Yes

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Versioning


No version available

Maintainer


  • person_outline Jan Schroder

Publication for Short Read Error Correction

SHREC citations

 (2)
library_books

A comparative study of k spectrum based error correction methods for next generation sequencing data analysis

2016
Hum Genomics
PMCID: 4965716
PMID: 27461106
DOI: 10.1186/s40246-016-0068-0

[…] ets.Previous evaluations showed that Musket was consistently one of the top performing correctors for both simulated and real datasets when it was compared with several well-regarded programs: HiTEC, SHREC, Coral, Quake, Reptile, DecGPU, and SGA []. Here, we also demonstrated that Musket yielded better performance metrics than Reptile. When authors of Bless [], Trowel [], and Lighter [] performed […]

library_books

Biochemical and bioinformatic methods for elucidating the role of RNA–protein interactions in posttranscriptional regulation

2014
Brief Funct Genomics
PMCID: 4471435
PMID: 24951655
DOI: 10.1093/bfgp/elu020

[…] ly and mapping quality. Compared with deleting information, the general concept of correcting reads to decrease the number of mismatches relative to the reference is thus more powerful. Tools such as SHREC [] or Quake [] identify different types of errors such as amplification or sequencing errors within genomic DNA sequence reads and return corrected reads that can subsequently be mapped less amb […]

SHREC institution(s)
Institut für Informatik, Christian-Albrecht-Universität Kiel, Kiel, Germany; School of Computer Science and Information Technology, RMIT University, VIC, Australia; Department of Computer Science and Software Engineering, University of Melbourne, VIC, Australia; School of Computer Engineering, Nanyang Technological University, Singapore
SHREC funding source(s)
Supported by the Australian Research Council, and by the NICTA Victorian Research Laboratory.

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