PedCut pipeline

PedCut specifications


Unique identifier OMICS_13150
Name PedCut
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C, Perl
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.19
Stability Stable
Requirements PEDIG, PedHunter
Source code URL
Maintained Yes


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  • person_outline Yurii S. Aulchenko <>

Publication for PedCut

PedCut IN pipelines

PMCID: 5916965
PMID: 29725345
DOI: 10.3389/fgene.2018.00133

[…] erf were used. the cases were linked in a single large pedigree of 23 generations. however, due to the linkage software restraints, the cases were clustered into 27 smaller (≤24 bits) families using pedcut software (liu et al., 2008). we used haplopainter (thiele and nürnberg, 2005) to illustrate all 27 pedigrees (supplementary figure s1). we then performed affected-only parametric linkage […]

PMCID: 3643945
PMID: 23658753
DOI: 10.1371/journal.pone.0062615

[…] when disease snps with recessive, additive, and dominant modes of inheritance and odds ratios of 1.1, 1.5, 2.0, and 5.0 were simulated. we generated subpedigrees with a maximum bit-size of 24 using pedcut and performed two-point and multipoint linkage using merlin. we also ran mqls on the subpedigrees and unified pedigree. we saw no inflation of type 1 error when running mqls on either […]

PedCut institution(s)
Department of Epidemiology & Biostatistics, Genetic Epidemiology unit, Erasmus MC, Rotterdam, Netherlands; Siberian Division, Institute of Cytology and Genetics, Russian Academy of Sciences, Novosibirsk, Russia
PedCut funding source(s)
This work was supported by Netherlands Organization for Scientific Research (NWO, 91203014), the joint grant from the Netherlands Organization for Scientific Research and the Russian Foundation for Basic Research (NWO-RFBR), the Centre of Medical Systems Biology (CMSB), Hersenstichting Nederland, Internationale Stichting Alzheimer Onderzoek (ISAO), Alzheimer Association project number 04516, Hersenstichting Nederland project number 12F04(2).76, Interuniversity Attraction Poles (IUAP) program.

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