Haplin statistics

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Haplin specifications


Unique identifier OMICS_21755
Name Haplin
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 6.2.0
Stability Stable
Maintained Yes


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  • person_outline Hakon Gjessing <>
  • person_outline Hakon Gjessing <>

Additional information


Publications for Haplin

Haplin in publications

PMCID: 5834486
PMID: 29535761
DOI: 10.3389/fgene.2018.00060

[…] factors. however, a robust investigation of these gene-environment (gxe) interactions at a genome-wide level is still lacking for isolated cl/p., materials and methods: we used our r-package haplin to perform a genome-wide search for gxe effects in isolated cl/p. from a previously published gwas, genotypes and information on maternal periconceptional cigarette smoking, alcohol intake, […]

PMCID: 5827165
PMID: 29520293
DOI: 10.3389/fgene.2018.00025

[…] sex-specific differences in prevalence and are examples of traits where a search for various types of effects on the x chromosome might be relevant., materials and methods: we upgraded our r-package haplin to enable genome-wide analyses of poo effects, as well as power simulations for different statistical models. 14,486 x-chromosome snps in 1,291 asian and 1,118 european case-parent triads […]

PMCID: 5844642
PMID: 29373897
DOI: 10.22034/APJCP.2018.19.1.91

[…] family study model statistical result gathering, and for increasing the statistical confidence in these results, a hybrid analysis was used, in which analysis was performed, using the r software, haplin package, which is based on a log-linear model, and if necessary, uses – expectation–maximization algorithm for haplotype reconstruction (gjessing and lie, 2006; hosseini teshnizi and taghi […]

PMCID: 5813215
PMID: 29094765
DOI: 10.1111/ahg.12224

[…] are then tested applying a wald‐based posttest of parameters across strata. our framework includes a complete setup for power calculations. we have implemented the models in the r software package haplin., to illustrate our pooxe test, we applied the new methodology to top hits from our previous gwas, assessing whether smoking during the periconceptional period modifies poo effects on cleft […]

PMCID: 5587310
PMID: 28877219
DOI: 10.1371/journal.pone.0183772

[…] with or without cleft palate (cl/p)., genotypes for 14,486 x-chromosome snps in 1,291 asian and 1,118 european isolated cleft triads were available from a previously published gwas. the r-package haplin enables genome-wide–level analyses as well as statistical power simulations for a range of biologic scenarios. we analyzed isolated cl/p and isolated cpo for each ethnicity in haplin, using […]

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Haplin institution(s)
Department of Global Public Health and Primary Care, University of Bergen, Bergen, Norway; Department of Genetics and Bioinformatics, Norwegian Institute of Public Health (NIPH), Oslo, Norway; Centre for Fertility and Health (CeFH), Norwegian Institute of Public Health, Oslo, Norway; Biostatistics and Computational Biology Branch, National Institute of Environmental Health Sciences (NIH/NIEHS), Durham, NC, USA; Department of Epidemiology, School of Public Health, Johns Hopkins University, Baltimore, MD, USA; Center for Craniofacial and Dental Genetics, Department of Oral Biology, School of Dental Medicine, University of Pittsburgh, Pittsburgh, PA, USA; Department of Pediatrics, University of Iowa, Iowa City, IA, USA; Epidemiology Branch, National Institute of Environmental Health Sciences (NIH/ NIEHS), Durham, NC, USA; Department of Health Registries, Norwegian Institute of Public Health, Oslo, Norway
Haplin funding source(s)
Supported by the Bergen Medical Research Foundation, grant 807191; in part by the Intramural Program of the National Institute of Environmental Health Sciences, National Institutes of Health (NIH/ NIEHS); by NIH grant DE08559; and partly by the Research Council of Norway, project number 262700.

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