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Number of citations per year for the bioinformatics software tool IBDseq
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IBDseq specifications

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Unique identifier OMICS_05460
Name IBDseq
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for IBDseq

IBDseq citations

 (4)
library_books

A population specific reference panel empowers genetic studies of Anabaptist populations

2017
Sci Rep
PMCID: 5519631
PMID: 28729679
DOI: 10.1038/s41598-017-05445-3

[…] er effects, inbreeding, and other population forces. Such increases may increase imputation accuracy by improved phasing. To assess these phenomena in the AGRP, we identified IBD and HBD regions with IBDseq, a method designed specifically to identify such regions in WGS data. To compare the IBD sharing among Anabaptists, among other Europeans, and between Anabaptists and other Europeans, we merged […]

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Enrichment of low frequency functional variants revealed by whole genome sequencing of multiple isolated European populations

2017
Nat Commun
PMCID: 5490002
PMID: 28643794
DOI: 10.1038/ncomms15927

[…] eneration and a longer generation time of 33 years. We then estimated more recent demographic changes (from the present to ∼9,000 years ago) using IBDNe with the minimum-sample-size data set. We used IBDseq to detect IBD segments in sequence data from chromosome 2 in all populations. We then used IBDNe with the default parameters and a minimum IBD segment length of 2 centiMorgan (cM) units. We ass […]

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A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome

2016
Nat Commun
PMCID: 5062574
PMID: 27725671
DOI: 10.1038/ncomms12522

[…] al singletons per individual in this sample (average=15,946 compared with the other sampling sites ranging 26,545–35,565). Consistent with other patterns of bottlenecks in this population, we ran the IBDseq/IBDne pipeline using best practices recommended by the authors. We observe an elevation of median pairwise identity-by-descent (IBD) in the Garifuna (167 Mb), relative to an expected value of 0 […]

library_books

Conflation of Short Identity by Descent Segments Bias Their Inferred Length Distribution

2016
PMCID: 4856080
PMID: 26935417
DOI: 10.1534/g3.116.027581

[…] using high-density array data, as the field develops algorithms aimed to detect even shorter segments due to the improved density of markers in the era of whole genome sequencing [e.g., programs like IBDseq ()], it seems imperative to note and reevaluate the potential problem of conflation. We found that ∼75–80% of the conflated segments are the result of pairs of segments existing in trans, sugge […]


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IBDseq institution(s)
Department of Medicine, Division of Medical Genetics, University of Washington, Seattle, WA, USA

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