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Protocols

Evoker specifications

Information


Unique identifier OMICS_22152
Name Evoker
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Input format CHIAMO,ILLUMINUS,BIRDSUITE,BEAGLECALL
Output format PNG
Operating system Unix/Linux, Windows
Programming languages Java, Perl
License MIT License
Computer skills Medium
Version 2.4.1
Stability Stable
Maintained Yes

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Maintainers


  • person_outline Jeffrey Barrett <>
  • person_outline Daniel Rice <>

Publication for Evoker

Evoker citations

 (13)
library_books

Risk of nontyphoidal Salmonella bacteraemia in African children is modified by STAT4

2018
PMCID: 5844948
PMID: 29523850
DOI: 10.1038/s41467-017-02398-z

[…] uncertainty) in snptest2 under additive and genotypic models of association. following association analysis, genotyped snps nominally associated (p < 1 × 10–3) with nts were inspected with evoker and snps with poor cluster separation excluded from further analysis. further snp qc exclusions were applied as follows: model-specific imputation info score <0.8 and hardy–weinberg […]

library_books

Application of the Physical Disector Principle for Quantification of Dopaminergic Neuronal Loss in a Rat 6 Hydroxydopamine Nigral Lesion Model of Parkinson's Disease

2017
PMCID: 5727600
PMID: 29276478
DOI: 10.3389/fnana.2017.00109

[…] attenuated effect on dopamine release on the lesioned side (ungerstedt and arbuthnott, ; hefti et al., ; carman et al., ; schwarting and huston, ). of the two agents, amphetamine is the stronger evoker of behavioral asymmetry. thus, rats with more restricted lesions of the snc do not show rotational asymmetry in response to apomorphine, such that animals with rotation exclusively […]

library_books

Exome wide association study reveals novel psoriasis susceptibility locus at TNFSF15 and rare protective alleles in genes contributing to type I IFN signalling

2017
PMCID: 5886170
PMID: 28973304
DOI: 10.1093/hmg/ddx328

[…] cluster plots were manually inspected for the 5000 snvs found to have the lowest p-values in a preliminary association test (see below). where appropriate, genotypes were manually “rescued” using evoker (version 2.3) ()., we removed samples from the german and estonian cohorts with high missingness (> 2%). snvs were removed if they had low call rate (< 95%) or deviated from hardy […]

library_books

Transancestral mapping and genetic load in systemic lupus erythematosus

2017
PMCID: 5520018
PMID: 28714469
DOI: 10.1038/ncomms16021

[…] options were used with one exception: the ‘-nointcutoff’ option was included to allow removal of intensity outliers. subsequent genotype clusters were viewed against their intensity data using evoker. genotype calling was completed in four batches, keeping samples genotyped at the same center in the same batch. batches were designed to include samples of multiple ancestries when possible […]

library_books

Analysis of five chronic inflammatory diseases identifies 27 new associations and highlights disease specific patterns at shared loci

2016
PMCID: 4848113
PMID: 26974007
DOI: 10.1038/ng.3528

[…] immunochip intensity cluster plots of all genome-wide significant snp markers (psbm<5×10−7 and pdisease<5×10−8; psbm<5×10−8) from were manually inspected by three different persons using evoker to ensure that they were well clustered., to compare different disease models at each locus we used bayesian multinomial regression. a disease model is a list of diseases that a given locus […]

library_books

A genome wide analysis of putative functional and exonic variation associated with extremely high intelligence

2015
PMCID: 4650257
PMID: 26239293
DOI: 10.1038/mp.2015.108

[…] all genotype refinement were included in the analysis., after a preliminary association analysis, we manually reviewed the cluster plots for 10 000 variants (ordered by association p-value) using the evoker tool (see web resources section) and recalled genotypes or removed snps where necessary. during this process, 1083 snps were removed from the analysis owing to poor clustering. a total of 227 8 […]


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Evoker institution(s)
Wellcome Trust Sanger Institute, Hinxton, Cambridge, UK; Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK

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