ArticleBioinformatics (Oxford, England)2017
GARLIC: Genomic Autozygosity Regions Likelihood-based Inference and Classification.
Article in Bioinformatics (Oxford, England), 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed.
- Genotypic and phenotypic consequences of domestication in dogs.G3 (Bethesda, Md.) · 2026Article
- Uniparental Disomy Reveals Hidden Genetic Causes of Congenital Heart Disease.Research square · 2026Article
- Rapid expansion overcomes inbreeding in cross-hemisphere colonization of Barn Swallows.bioRxiv : the preprint server for biology · 2026Article
- Census and genetic analysis of the United States marmoset population.bioRxiv : the preprint server for biology · 2026Article
- Historically Small Population Size Limits Purging of Deleterious Mutations in a Conservation-Reliant Species, the Kirtland's Warbler.bioRxiv : the preprint server for biology · 2026Article
- The Influence of Demographic History and Genetic Architecture on Complex Traits via Runs of Homozygosity.bioRxiv : the preprint server for biology · 2025Article
- Exceedingly low genetic diversity in snow leopards due to persistently small population size.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Inbreeding and deleterious variation in South Asian populations.Scientific reports · 2025Article
- Genotypic and phenotypic consequences of domestication in dogs.bioRxiv : the preprint server for biology · 2025Article
- Nested Admixture During and After the Trans-Atlantic Slave Trade on the Island of São Tomé.Molecular biology and evolution · 2025Article
- Recently Delisted Songbird Harbors Extensive Genomic Evidence of Inbreeding, Potentially Complicating Future Recovery.Evolutionary applications · 2024Article
- Unraveling the genomic diversity and admixture history of captive tigers in the United States.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Genomic Consequences of Isolation and Inbreeding in an Island Dingo Population.Genome biology and evolution · 2024Article
- The Maintenance of Deleterious Variation in Wild Chinese Rhesus Macaques.Genome biology and evolution · 2024Article
- Measuring the Efficiency of Purging by non-random Mating in Human Populations.Molecular biology and evolution · 2024Article
- The Maintenance of Deleterious Variation in Wild Chinese Rhesus Macaques.bioRxiv : the preprint server for biology · 2024Article
- Genomic consequences of isolation and inbreeding in an island dingo population.bioRxiv : the preprint server for biology · 2024Article
- A genetic and linguistic analysis of the admixture histories of the islands of Cabo Verde.eLife · 2023Article
- Associations of genome-wide and regional autozygosity with 96 complex traits in old order Amish.BMC genomics · 2023Article
- Examination of runs of homozygosity in relation to height in an endogamous Namibian population.American journal of biological anthropology · 2023Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
summaryRuns of homozygosity (ROH) are important genomic features that manifest when identical-by-descent haplotypes are inherited from parents. Their length distributions and genomic locations are informative about population history and they are useful for mapping recessive loci contributing to both Mendelian and complex disease risk. Here, we present software implementing a model-based method ( Pemberton et al., 2012 ) for inferring ROH in genome-wide SNP datasets that incorporates population-specific parameters and a genotyping error rate as well as provides a length-based classification module to identify biologically interesting classes of ROH. Using simulations, we evaluate the performance of this method. AVAILABILITY AND IMPLEMENTATION: GARLIC is written in C ++. Source code and pre-compiled binaries (Windows, OSX and Linux) are hosted on GitHub ( https://github.com/szpiech/garlic ) under the GNU General Public License version 3. CONTACT: zachary.szpiech@ucsf.edu. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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