Tag: Error Correction

RC454 1.2 – Read Alignment and Error Correction tool for Cleaning 454 Reads of Process Errors

RC454 1.2

:: DESCRIPTION

RC454 (ReadClean454) is a program that takes a set of 454 read and quality files as well as a consensus assembly for those reads and corrects for known 454 error modes such as homopolymer indels and carry forward/incomplete extension (CAFIE).It will also correct for any indel that breaks the reading frame, unless it occurs in more than 25% of the reads.

::DEVELOPER

Computational R&D, The Broad Institute, Cambridge, MA

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 RC454

:: MORE INFORMATION

ECHO 1.12 – Reference-free Short-read Error Correction Algorithm

ECHO 1.12

:: DESCRIPTION

ECHO is an error correction algorithm designed for short-reads from next-generation sequencing platforms such as Illumina’s Genome Analyzer II. The algorithm uses a Bayesian framework to improve the quality of the reads in a given data set by employing maximum a posteriori estimation.

::DEVELOPER

Yun S. Song

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 ECHO

:: MORE INFORMATION

Citation

Kao, W.-C., Chan, A. H., and Song, Y. S.
ECHO: A reference-free short-read error correction algorithm,
Genome Research, 21 (2011) 1181-1192″

Hybrid SHREC – Error Correction Algorithm for Correcting Reads

Hybrid SHREC

:: DESCRIPTION

Hybrid SHREC is an error correction algorithm for correcting reads from various DNA sequencing platforms. We provide two versions of the algorithm: one that performs the error correction in base space and is limited to normal base space reads and another that performs error correction in the color space of the SOLiD sequencing technology by Applied Biosystems.

::DEVELOPER

Leena Salmela

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

  Hybrid SHREC

:: MORE INFORMATION

Citation:

Bioinformatics. 2010 May 15;26(10):1284-90. Epub 2010 Apr 8.
Correction of sequencing errors in a mixed set of reads.
Salmela L.