Other packages > Find by keyword >

hiphop  

Parentage Assignment using Bi-Allelic Genetic Markers
View on CRAN: Click here


Download and install hiphop package within the R console
Install from CRAN:
install.packages("hiphop")

Install from Github:
library("remotes")
install_github("cran/hiphop")

Install by package version:
library("remotes")
install_version("hiphop", "0.0.1")



Attach the package and use:
library("hiphop")
Maintained by
Martijn van de Pol
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2020-08-19
Latest Update: 2020-08-19
Description:
Can be used for paternity and maternity assignment and outperforms conventional methods where closely related individuals occur in the pool of possible parents. The method compares the genotypes of offspring with any combination of potentials parents and scores the number of mismatches of these individuals at bi-allelic genetic markers (e.g. Single Nucleotide Polymorphisms). It elaborates on a prior exclusion method based on the Homozygous Opposite Test (HOT; Huisman 2017 ) by introducing the additional exclusion criterion HIPHOP (Homozygous Identical Parents, Heterozygous Offspring are Precluded; Cockburn et al., in revision). Potential parents are excluded if they have more mismatches than can be expected due to genotyping error and mutation, and thereby one can identify the true genetic parents and detect situations where one (or both) of the true parents is not sampled. Package 'hiphop' can deal with (a) the case where there is contextual information about parentage of the mother (i.e. a female has been seen to be involved in reproductive tasks such as nest building), but paternity is unknown (e.g. due to promiscuity), (b) where both parents need to be assigned, because there is no contextual information on which female laid eggs and which male fertilized them (e.g. polygynandrous mating system where multiple females and males deposit young in a common nest, or organisms with external fertilisation that breed in aggregations). For details: Cockburn, A., Penalba, J.V.,Jaccoud, D.,Kilian, A., Brouwer, L., Double, M.C., Margraf, N., Osmond, H.L., van de Pol, M. and Kruuk, L.E.B. (in revision). HIPHOP: improved paternity assignment among close relatives using a simple exclusion method for bi-allelic markers. Molecular Ecology Resources, DOI to be added upon acceptance.
How to cite:
Martijn van de Pol (2020). hiphop: Parentage Assignment using Bi-Allelic Genetic Markers. R package version 0.0.1, https://cran.r-project.org/web/packages/hiphop. Accessed 06 Mar. 2026.
Previous versions and publish date:
No previous versions
Other packages that cited hiphop R package
View hiphop citation profile
Other R packages that hiphop depends, imports, suggests or enhances
Complete documentation for hiphop
Functions, R codes and Examples using the hiphop R package
Some associated functions: combinations . genotypes . hothiphop . individuals . inspect . topmatch . 
Some associated R codes: hothiphop.R . inspect.R . topmatch.R .  Full hiphop package functions and examples
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

openxlsx  
Read, Write and Edit xlsx Files
Simplifies the creation of Excel .xlsx files by providing a high level interface to writing, stylin ...
Download / Learn more Package Citations See dependency  
mlr3viz  
Visualizations for 'mlr3'
Visualization package of the 'mlr3' ecosystem. It features plots for mlr3 objects such as tasks, le ...
Download / Learn more Package Citations See dependency  
EMVS  
The Expectation-Maximization Approach to Bayesian Variable Selection
An efficient expectation-maximization algorithm for fitting Bayesian spike-and-slab regularization p ...
Download / Learn more Package Citations See dependency  
solitude  
An Implementation of Isolation Forest
Isolation forest is anomaly detection method introduced by the paper Isolation based Anomaly Detecti ...
Download / Learn more Package Citations See dependency  
DatabionicSwarm  
Swarm Intelligence for Self-Organized Clustering
Algorithms implementing populations of agents that interact with one another and sense their environ ...
Download / Learn more Package Citations See dependency  
r2resize  
In-Text Resize for Images, Tables and Fancy Resize Containers in 'shiny', 'rmarkdown' and 'quarto' Documents
Automatic resizing toolbar for containers, images and tables. Various resizable or expandable contai ...
Download / Learn more Package Citations See dependency  

26,264

R Packages

223,360

Dependencies

70,244

Author Associations

26,265

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA