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HapFABIA specifications

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Unique identifier OMICS_00203
Name HapFABIA
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU Lesser General Public License version 2.1
Computer skills Advanced
Version 1.0.6
Stability Stable
Requirements
Biobase, fabia
Maintained Yes

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Maintainer


  • person_outline Sepp Hochreiter

Publication for HapFABIA

HapFABIA citations

 (2)
library_books

Rectified factor networks for biclustering of omics data

2017
Bioinformatics
PMCID: 5870657
PMID: 28881961
DOI: 10.1093/bioinformatics/btx226

[…] are in a segment of dna, the probability of observing k or more model snvs by chance in this segment is given by: (7)pr⁡(k≥k)=∑i=kn(ni) pi (1−p)n−i . towards this end, the routine implemented in hapfabia () was adjusted to extract ibd segments from rfn biclusters. the binomial test () is used as a first step to identify local accumulations of minor alleles that were extracted by rfn. […]

library_books

IBD Sharing between Africans, Neandertals, and Denisovans

2017
Genome Biol Evol
PMCID: 5381509
PMID: 28158547
DOI: 10.1093/gbe/evw234

[…] would both help to better identify later gene flow events and shed light on adaptation processes that were supported by interbreeding between hominin groups at different points in time., we use hapfabia (), our recently developed method for detecting dna segments that are identical by descent (ibd), on the 1000 genomes phase 3 data with the aim to gain insights into the genetic […]


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HapFABIA institution(s)
Institute of Bioinformatics, Johannes Kepler University, Linz, Austria

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