Loki specifications

Information


Unique identifier OMICS_09402
Name Loki
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Version 2.4.5
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Elizabeth Thompson <>

Publication for Loki

Loki in publications

 (4)
PMCID: 4246441
PMID: 25387527
DOI: 10.1186/1471-2261-14-158

[…] recombinants were detected using the simwalk2 package [] with the overall blanking rate for both types of errors of less than 1%. multipoint identity-by-descent (ibd) sharing was estimated using loki []. pedigree relationships were verified using the prest package []. this information was used in the implementation of the quantitative trait nucleotide (qtn) analysis., we evaluated […]

PMCID: 3323558
PMID: 22506048
DOI: 10.1371/journal.pone.0034746

[…] probabilities. exact estimation with software such as genehunter , allegro , or merlin required more computer memory than was available; markov chain monte carlo (mcmc) methods, as employed by loki , genibd , solar , and simwalk failed to converge or converged to obviously incorrect solutions, after consuming literally weeks of cpu time., therefore, we used a simplified version […]

PMCID: 2901203
PMID: 20540762
DOI: 10.1186/1297-9686-42-21

[…] shown to successfully detect linkage for multiallelic qtls [-]. a comparison between the performance of mutiallelic and biallelic analyses under multiallelic modes of inheritance using the package loki and the multiallelic version of loki (maloki) was done by rosenthal et al. [] using both simulated and real data. for simulated data a four-generation pedigree with 98 individuals was simulated […]

PMCID: 1866751
PMID: 16451644
DOI: 10.1186/1471-2156-6-S1-S34

[…] with snp markers, the large size of some of these pedigrees required extensive trimming because the basic algorithm still computes all possible inheritance vectors. we therefore decided to use the loki software to generate ibd matrices., loki uses markov chain monte carlo (mcmc) methodology to repeatedly sample possible segregation patterns. however, determining appropriate run length (number […]


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Loki institution(s)
Department of Statistics, University of Washington, Seattle, WA, USA; Department of Biostatistics, University of Washington, Seattle, WA, USA; Division of Medical Genetics, University of Washington, Seattle, WA, USA

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