hapLOH specifications


Unique identifier OMICS_25795
Name hapLOH
Software type Application/Script
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux, Mac OS
Programming languages Perl, Python
License MIT License
Computer skills Advanced
Version 1.4
Stability Stable
Source code URL http://haploh.scheetlabsoftware.org/hapLOH-1.4/hapLOH-1.4.tgz
Registration required Yes
Maintained Yes


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  • person_outline Selina Vattathil <>

Publication for hapLOH

hapLOH in publications

PMCID: 5500342
PMID: 28683077
DOI: 10.1371/journal.pone.0180467

[…] was performed according to the manufacturer protocol, using 200 ng dna. preliminary analysis was done using bluefuse multi 4.1, cytochip module (illumina). b allele frequency was estimated by haploh []. probe ids, b allele frequencies, log r ratios, and ab genotype calls were extracted from bluefuse output, and ab genotypes were converted to plus strand alleles using allele and strand […]

PMCID: 4148184
PMID: 25166618
DOI: 10.1371/journal.pcbi.1003765

[…] bafs and statistically-estimated haplotypes to create a data transformation amenable to break-point detection algorithms for regions of ai smaller than entire chromosome arms . however, this method (haploh) ignored the magnitude of the baf deviations and, in its current implementation, does not utilize lrr values., here we propose a model for joint inference of germline haplotypes […]

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hapLOH institution(s)
Human & Molecular Genetics Program, The University of Texas Graduate School of Biomedical Sciences, Houston, TX, USA; Department of Epidemiology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
hapLOH funding source(s)
Supported by NIH grants 1R01HG005859 and R01HG005855.

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