kinship2: Pedigree Functions

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.

AuthorTerry M Therneau [aut], Schaid Daniel [ctb], Jason Sinnwell [aut, cre], Elizabeth Atkinson [ctb]
Date of publication2015-08-03 21:10:46
MaintainerJason Sinnwell <sinnwell.jason@mayo.edu>
LicenseGPL (>= 2)
Version1.6.4
http://r-forge.r-project.org

View on CRAN

Functions

align.pedigree Man page
as.data.frame.pedigree Man page
autohint Man page
bitSize Man page
excludeStrayMarryin Man page
excludeUnavailFounders Man page
familycheck Man page
findAvailAffected Man page
findAvailNonInform Man page
findUnavailable Man page
ibdMatrix Man page
kindepth Man page
kinship Man page
kinship.default Man page
kinship.pedigree Man page
kinship.pedigreeList Man page
makefamid Man page
makekinship Man page
minnbreast Man page
minnbreast2 Man page
pedigree Man page
pedigree.legend Man page
pedigree.shrink Man page
pedigree.trim Man page
pedigree.unrelated Man page
plot.pedigree Man page
plot.pedigree.shrink Man page
printBanner Man page
print.pedigree Man page
print.pedigree.shrink Man page
sample.ped Man page
testped1 Man page

Files

kinship2
kinship2/inst
kinship2/inst/COPYRIGHT
kinship2/inst/NEWS.Rd
kinship2/inst/doc
kinship2/inst/doc/pedigree.snw
kinship2/inst/doc/pedigree.pdf
kinship2/inst/doc/pedigree.R
kinship2/inst/GPL2.txt
kinship2/tests
kinship2/tests/test.pedigree.trim.R
kinship2/tests/kin1.Rout.save
kinship2/tests/test.pedigree.legend.R
kinship2/tests/ped3.txt
kinship2/tests/subscript.Rout.save
kinship2/tests/makefam.Rout.save
kinship2/tests/test.kinX.Rout.save
kinship2/tests/sampleped1.pdf
kinship2/tests/ped2.pdf
kinship2/tests/ped1.pdf
kinship2/tests/kin1.R
kinship2/tests/monozygote.R
kinship2/tests/failure.R
kinship2/tests/twin.Rout.save
kinship2/tests/ped27_71.txt
kinship2/tests/failure.Rout.save
kinship2/tests/makefam.R
kinship2/tests/test.kinX.R
kinship2/tests/test.pedigree.legend.Rout.save
kinship2/tests/test.pedigree.trim.Rout.save
kinship2/tests/subscript.R
kinship2/tests/test.pedigree.shrink.R
kinship2/tests/monozygote.Rout.save
kinship2/tests/test.pedigree.shrink.Rout.save
kinship2/tests/test.pedigree.unrelated.R
kinship2/tests/twin.R
kinship2/tests/test.pedigree.unrelated.Rout.save
kinship2/NAMESPACE
kinship2/noweb
kinship2/noweb/Makefile
kinship2/noweb/all.toc
kinship2/noweb/all.log
kinship2/noweb/plot.Rnw
kinship2/noweb/noweb.sty
kinship2/noweb/pedigree.R
kinship2/noweb/pedigree.shrink.Rnw
kinship2/noweb/kinship.Rnw
kinship2/noweb/all.tex
kinship2/noweb/MAINTAIN.steps
kinship2/noweb/figure
kinship2/noweb/figure/pdraw3.s
kinship2/noweb/figure/pdraw1.s
kinship2/noweb/figure/pdraw2.s
kinship2/noweb/all.aux
kinship2/noweb/pedigree.Rnw
kinship2/noweb/checks.Rnw
kinship2/noweb/align2.Rnw
kinship2/noweb/kinship.R
kinship2/noweb/noweb.R
kinship2/noweb/align.Rnw
kinship2/noweb/all.nw
kinship2/data
kinship2/data/sample.ped.tab.gz
kinship2/data/testped1.tab.gz
kinship2/data/minnbreast.rda
kinship2/R
kinship2/R/findUnavailable.R kinship2/R/alignped1.R kinship2/R/print.pedigree.R kinship2/R/as.data.frame.pedigree.R kinship2/R/makefamid.R kinship2/R/alignped2.R kinship2/R/alignped4.R kinship2/R/besthint.R kinship2/R/familycheck.R kinship2/R/pedigree.R kinship2/R/pedigree.unrelated.R kinship2/R/pedigree.trim.R kinship2/R/findAvailNonInform.R kinship2/R/check.hint.R kinship2/R/printBanner.R kinship2/R/fscore.pedigree.R kinship2/R/makekinship.R kinship2/R/descendant.pedigree.R kinship2/R/pedigree.legend.R kinship2/R/findAvailAffected.R kinship2/R/plot.pedigree.R kinship2/R/alignped3.R kinship2/R/kindepth.R kinship2/R/pedigree.shrink.minor.R kinship2/R/plot.pedigree.shrink.R kinship2/R/bitSize.R kinship2/R/align.pedigree.R kinship2/R/ped2df.R kinship2/R/kinship.R kinship2/R/autohint.R kinship2/R/ibdMatrix.R kinship2/R/print.pedigree.shrink.R kinship2/R/pedigree.shrink.R
kinship2/vignettes
kinship2/vignettes/pedigree.snw
kinship2/MD5
kinship2/build
kinship2/build/vignette.rds
kinship2/DESCRIPTION
kinship2/man
kinship2/man/ibdMatrix.Rd kinship2/man/findAvailAffected.Rd kinship2/man/align.pedigree.Rd kinship2/man/findUnavailable.Rd kinship2/man/bitSize.Rd kinship2/man/kindepth.Rd kinship2/man/testped1.Rd kinship2/man/pedigree.legend.Rd kinship2/man/findAvailNonInform.Rd kinship2/man/kinship.Rd kinship2/man/pedigree.Rd kinship2/man/familycheck.Rd kinship2/man/pedigree.shrink.Rd kinship2/man/makefamid.Rd kinship2/man/plot.pedigree.Rd kinship2/man/printBanner.Rd kinship2/man/makekinship.Rd kinship2/man/minnbreast.Rd kinship2/man/plot.pedigree.shrink.Rd kinship2/man/autohint.Rd kinship2/man/sample.ped.Rd kinship2/man/pedigree.unrelated.Rd

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