Routines to handle family data with a pedigree object. The initial purpose was to create correlation structures that describe family relationships such as kinship and identity-by-descent, which can be used to model family data in mixed effects models, such as in the coxme function. Also includes a tool for pedigree drawing which is focused on producing compact layouts without intervention. Recent additions include utilities to trim the pedigree object with various criteria, and kinship for the X chromosome.
|Author||Terry M Therneau [aut], Schaid Daniel [ctb], Jason Sinnwell [aut, cre], Elizabeth Atkinson [ctb]|
|Date of publication||2015-08-03 21:10:46|
|Maintainer||Jason Sinnwell <firstname.lastname@example.org>|
|License||GPL (>= 2)|
align.pedigree: Generate plotting information for a pedigree
autohint: Align a pedigree to print well
bitSize: Calculate pedigree bitsize, defined as 2 * # NonFounders - #...
familycheck: Error check for a family classification
findAvailAffected: Find a single person to trim from a pedigree whose is...
findAvailNonInform: Find subjects from a pedigree who are available and...
findUnavailable: Find unavailable subjects in a pedigree
ibdMatrix: Create an IBD matrix
kindepth: Compute the depth of each subject in a pedigree
kinship: Compute a kinship matrix
makefamid: Construct a family id from pedigree information
makekinship: Create a sparse kinship matrix
minnbreast: Minnesota Breast Cancer Study
pedigree: Create pedigree structure
pedigree.legend: Plot a pedigree legend
pedigree.shrink: Trim a pedigree to specified bit size with priority placed on...
pedigree.unrelated: Determine set of maximum number of unrelated available...
plot.pedigree: plot pedigrees
plot.pedigree.shrink: plot pedigree.shrink object that is a shrunk pedigree object
printBanner: Print a nice banner
sample.ped: Two example pedigrees