LoRDEC protocols

LoRDEC specifications

Information


Unique identifier OMICS_05407
Name LoRDEC
Alternative name Long Read DBG Error Correction
Software type Application/Script
Interface Command line interface
Restrictions to use None
Biological technology Pacific Biosciences
Operating system Unix/Linux, Mac OS
Programming languages C++
Computer skills Advanced
Version 1.3.2
Stability Stable
Maintained Yes

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Maintainer


  • person_outline LoRDEC Team <>

Additional information


https://gite.lirmm.fr/lordec/lordec-releases/wikis/home

Publication for Long Read DBG Error Correction

LoRDEC IN pipeline

2017
PMCID: 5550469
PMID: 28794490
DOI: 10.1038/s41598-017-08138-z

[…] were subjected to isoform-level clustering by iec algorithm and herein produced consensus sequences of isoform12. finally, the isoform sequences were corrected in aid of illumina short reads using lordec tool v0.6 with -k 21, -s 3, and default setting for other parameters23., the corrected isoform sequences were aligned against reference genome using gmap aligner v2016-08-2427 […]

LoRDEC institution(s)
Department of Computer Science and Helsinki Institute for Information Technology HIIT, University of Helsinki, Finland; LIRMM and Institut de Biologie Computationelle, CNRS and Universite Montpellier, Montpellier, France
LoRDEC funding source(s)
Supported by Academy of Finland (267591), by ANR Colib’read (ANR-12-BS02-0008) and Defi MASTODONS SePhHaDe from CNRS, and Labex NumEV, as well as the ATGC platform.

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