elPrep statistics

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Citations per year

Number of citations per year for the bioinformatics software tool elPrep
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Tool usage distribution map

This map represents all the scientific publications referring to elPrep per scientific context
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Associated diseases

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Popular tool citations

chevron_left SNP detection SNV detection File indexation File format conversion File merging File filtering File sampling File comparison File intersection File parsing-extraction File splitting File sorting chevron_right
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elPrep specifications

Information


Unique identifier OMICS_32988
Name elPrep
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input format SAM,BAM
Biological technology Illumina
Operating system Unix/Linux
License GNU Affero General Public License version 3
Computer skills Advanced
Version 4.0.1
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Charlotte Herzeel

Publications for elPrep

elPrep citations

 (2)
library_books

Evaluating the necessity of PCR duplicate removal from next generation sequencing data and a comparison of approaches

2016
BMC Bioinformatics
PMCID: 4965708
PMID: 27454357
DOI: 10.1186/s12859-016-1097-3

[…] ates containing an amplification-induced error may cause a variant calling algorithm to misidentify the error as a true variant. Several programs exist to remove or mark PCR duplicates (e.g. SEAL [], elPrep [], FastUniq [], etc.), but in this work we focus on the two most commonly used approaches: Picard MarkDuplicates (http://broadinstitute.github.io/picard/) and SAMTools rmdup [, ].SAMTools and […]

library_books

elPrep: High Performance Preparation of Sequence Alignment/Map Files for Variant Calling

2015
PLoS One
PMCID: 4504710
PMID: 26182406
DOI: 10.1371/journal.pone.0132868

[…] elPrep provides the option to process preparation pipelines per genomic region, a practice for splitting up sequencing workloads. However, it is not trivial to apply this technique to the Picard algor […]


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elPrep institution(s)
ExaScience Life Lab, imec, Leuven, Belgium; Department of Information Technology, Ghent University - imec, Ghent, Belgium

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