pcrelateReadInbreed: Create a Table of Inbreeding Coefficient Estimates from...

Description Usage Arguments Details Author(s) References See Also


pcrelateReadInbreed is used to create a table of inbreeding coefficient estimates from the output of pcrelate.


pcrelateReadInbreed(pcrelObj, scan.include = NULL, f.thresh = NULL)



The object containing the output from pcrelate. This could be a list of class pcrelate or an object of class gds.class read into R using the function openfn.gds from the gdsfmt package.


A vector of IDs for samples to be included in the table. The default is NULL, which includes all samples in pcrelObj.


Specifies a minimum value of the estimated inbreeding coefficient to include in the table; i.e. only individuals with an estimated inbreeding coefficient greater than f.thresh will be included in the table. The default is NULL, which includes all individuals.


This function provides an easy way to make a table of estimated inbreeding coefficients.


Matthew P. Conomos


Conomos M.P., Reiner A.P., Weir B.S., & Thornton T.A. (2016). Model-free Estimation of Recent Genetic Relatedness. American Journal of Human Genetics, 98(1), 127-148.

See Also

pcrelate for the function that performs PC-Relate. pcrelateReadKinship for the function that creates a table of pairwise kinship coefficient and IBD sharing probabilities from the same PC-Relate output file. pcrelateMakeGRM for the function that creates a genetic relationship matrix (GRM) of pairwise kinship coefficient estimates from the same PC-Relate output file.

Search within the GENESIS package
Search all R packages, documentation and source code

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.