This is a package implemented for flexible identity-by-descent (IBD) matrix estimation in F2 pedigrees. The IBD matrix estimate is approached by a Monte Carlo strategy, where the segregation of founder alleles is easy to define. Epistatic IBD matrices can also be calculated for two arbitrary loci. Such IBD matrix estimates are typically used in variance component quantitative trait loci (QTL) analysis. Parallelization is implemented to enhance the performance of Monte Carlo sampling.

Author | Xia Shen |

Date of publication | None |

Maintainer | Xia Shen <xia.shen@lcb.uu.se> |

License | Unlimited |

Version | 0.4 |

**cnF2freq:** Calculating Inheritance Probabilities using cnF2freq

**MCIBD:** Estimating Identity-By-Descent (IBD) Matrices using Monte...

**MCIBD.chro:** Estimating Identity-By-Descent (IBD) Matrices along A Whole...

**MCIBD.epi2chro:** Estimating Epistatic Identity-By-Descent (IBD) Matrices for...

**MCIBD-package:** Monte Carlo Identity-By-Descent Matrix Estimation

**pedigree:** A Pig Pedigree Information Dataset

**probabilities:** A Probailities Dataset of Pig Chromosome 6 from cnF2freq

MCIBD

MCIBD/NAMESPACE

MCIBD/data

MCIBD/data/datalist

MCIBD/data/pedigree.rda

MCIBD/data/probabilities.rda

MCIBD/R

MCIBD/R/MCIBD.R
MCIBD/R/MCIBD.epi2chro.R
MCIBD/R/cnF2freq.R
MCIBD/R/MCIBD.chro.R
MCIBD/inst

MCIBD/inst/other.zip

MCIBD/inst/MCIBD-manual.pdf

MCIBD/inst/other.tar

MCIBD/inst/doc

MCIBD/inst/doc/Sweave.sty

MCIBD/inst/doc/MCIBD.pdf

MCIBD/inst/doc/MCIBD_note_100819.pdf

MCIBD/inst/doc/pdfpages.dtx

MCIBD/inst/doc/MCIBD.Rnw

MCIBD/inst/doc/pdfpages.ins

MCIBD/DESCRIPTION

MCIBD/man

MCIBD/man/MCIBD.Rd
MCIBD/man/cnF2freq.Rd
MCIBD/man/MCIBD.chro.Rd
MCIBD/man/MCIBD-package.Rd
MCIBD/man/pedigree.Rd
MCIBD/man/MCIBD.epi2chro.Rd
MCIBD/man/probabilities.Rd
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