inbreedR: Analysing Inbreeding Based on Genetic Markers

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A framework for analysing inbreeding and heterozygosity-fitness correlations (HFCs) based on microsatellite and SNP markers.

Author
Martin A. Stoffel [aut, cre], Mareike Esser [aut], Joseph Hoffman [aut], Marty Kardos [aut]
Date of publication
2016-09-09 12:23:25
Maintainer
Martin A. Stoffel <martin.adam.stoffel@gmail.com>
License
GPL-2
Version
0.3.2

View on CRAN

Man pages

bodyweight
Oldfield mouse bodyweight data
check_data
Checks the data for consistency with the inbreedR working...
convert_raw
Genotype format converter
g2_microsats
Estimating g2 from microsatellite data
g2_snps
Estimating g2 from larger datasets, such as SNPs
HHC
Calculates heterzygosity-heterozygosity correlations with...
inbreedR
inbreedR: Workflows for analysing variance in inbreeding and...
MLH
Calculate multilocus heterozygosity (MLH)
mouse_msats
Oldfield mouse microsatellite data
mouse_snps
Oldfield mouse SNP data
plot.inbreed
Plot an inbreed object
print.inbreed
Print an inbreed object
r2_hf
Expected r2 between standardized multilocus heterozygosity...
r2_Wf
Expected r2 between inbreeding level (f) and fitness (W)
simulate_g2
Simulate g2
simulate_r2_hf
Calculates the expected squared correlation between...
sMLH
Calculate multilocus heterozygosity (MLH)

Files in this package

inbreedR
inbreedR/inst
inbreedR/inst/CITATION
inbreedR/inst/doc
inbreedR/inst/doc/inbreedR_step_by_step.Rmd
inbreedR/inst/doc/inbreedR_step_by_step.R
inbreedR/inst/doc/inbreedR_step_by_step.html
inbreedR/tests
inbreedR/tests/testthat.R
inbreedR/tests/testthat
inbreedR/tests/testthat/test-g2.R
inbreedR/tests/testthat/test-HHC.R
inbreedR/tests/testthat/test-MLH.R
inbreedR/tests/testthat/test-convert.R
inbreedR/tests/testthat/test-simulate_g2.R
inbreedR/tests/testthat/test-r2_Wf.R
inbreedR/tests/testthat/test-r2_hf.R
inbreedR/tests/testthat/test-sMLH.R
inbreedR/tests/testthat/test-simulate_r2_hf.R
inbreedR/NAMESPACE
inbreedR/data
inbreedR/data/bodyweight.rda
inbreedR/data/mouse_msats.rda
inbreedR/data/mouse_snps.rda
inbreedR/R
inbreedR/R/r2_hf.R
inbreedR/R/mouse_msats.R
inbreedR/R/simulate_g2.R
inbreedR/R/g2_microsats.R
inbreedR/R/mouse_snps.R
inbreedR/R/inbreedR.R
inbreedR/R/HHC.R
inbreedR/R/plot.inbreed.R
inbreedR/R/print.inbreed.R
inbreedR/R/g2_snps.R
inbreedR/R/convert_raw.R
inbreedR/R/check_data.R
inbreedR/R/simulate_r2_hf.R
inbreedR/R/r2_Wf.R
inbreedR/R/bodyweight.R
inbreedR/R/sMLH.R
inbreedR/vignettes
inbreedR/vignettes/bibliography.bib
inbreedR/vignettes/inbreedR_step_by_step.Rmd
inbreedR/README.md
inbreedR/MD5
inbreedR/build
inbreedR/build/vignette.rds
inbreedR/DESCRIPTION
inbreedR/man
inbreedR/man/HHC.Rd
inbreedR/man/print.inbreed.Rd
inbreedR/man/sMLH.Rd
inbreedR/man/mouse_snps.Rd
inbreedR/man/simulate_r2_hf.Rd
inbreedR/man/g2_snps.Rd
inbreedR/man/simulate_g2.Rd
inbreedR/man/r2_Wf.Rd
inbreedR/man/convert_raw.Rd
inbreedR/man/mouse_msats.Rd
inbreedR/man/MLH.Rd
inbreedR/man/check_data.Rd
inbreedR/man/inbreedR.Rd
inbreedR/man/g2_microsats.Rd
inbreedR/man/plot.inbreed.Rd
inbreedR/man/bodyweight.Rd
inbreedR/man/r2_hf.Rd