MoBPS1.13.1 package

Add a genotyping array

Add a trait as a linear combination of other traits

Add something to the diagonal

Add additional diverse material to a population

Add fixed effects to traits

Add a relationship matrix for founder individuals

Moore-Penrose-Transfomration

Analyze genomic values

Analyze allele frequency of a single marker

Decoding of bitwise-storing in R

Bitwise-storing in R

Breeding function

Internal function to simulate one meiosis

Internal function to simulate one meiosis

Internal function to simulate one meiosis

Internal function to simulate one meiosis

Internal function to simulate one meiosis

Internal function to simulate one meiosis

Internal function to simulate one meiosis

Internal function to simulate one meiosis

Internal function to simulate one meiosis

Development of genetic/breeding value using a boxplot

Development of genetic/breeding value

BV standardization

Calculate breeding values

Relatedness check between two individuals

Clean-up recombination points

Origins-coding(R)

Combine traits

Compute costs of a breeding program by cohorts

Compute costs of a breeding program

Compute genotype/haplotype in gene editing application

Compute genotype/haplotype

Generation of the starting population

Create a phenotypic transformation

Generation of genomic traits

Origins-Decoding(R)

Remove miraculix-coding for genotypes

Derive loop elements

Diagonal matrix

Detection of parental/child nodes

Internal gene editing function

Estimation of marker effects

Estimate effective population size

Martini-Test function

Function to extract if a cohort exists

Position detection (chromosome)

Position detection (SNPs)

Founder simulation

Function to generate a new individual

Admixture Plot

Derive age point

Calculate allele frequencies

Export underlying true breeding values

Export estimated breeding values

Derive class

Derive ID on an individual

Export Cohort-names

Derive computing time

Derive creating type

Derive culling time

Derive culling type

Derive time of culling

gen/database/cohorts conversion

Derive death point

Dendrogram Heatmap

Dendrogram

Dendrogram

Calculate Nei distance between two or more population

Compute marker frequency in QTL-markers

Estimate effective population size

Export parametrization of fixed effects

Derive genotypes of selected individuals

Derive genotyping timepoint

Derive genotyping status

Derive which markers are genotyped of selected individuals

Derive haplotypes of selected individuals

Derive ID on an individual

Putting together indices for GxE / multi trait

Extract bv/pheno/geno of selected individuals

First copy

Last copy

Export litter effect

Export litter

Calculate minor allele frequencies

Map generation

Number of generations

Number of individuals

Export underlying number of observations per phenotype

Number of traits

Principle components analysis

Derive pedigree

Derive pedigree

Draw pedigree

Derive pedigree including grandparents

Derive pedigree parents and grandparents

Generate plink-file (pedmap)

Export pen-effects

Export pen ID

Export underlying number of used offspring for offspring phenotypes

Export underlying offspring phenotypes

Export underlying phenotypes

Export underlying phenotypes

Derive phenotyping time point

Phylogenetic Tree

Generate binary plink-file

Derive founder pool

Export founder pool

QTL effect extraction

QTL extraction

QTL effect variance extraction

Derive genetic origins

Export underlying reliabilities

Export derived breeding values based on the selection index

Export underlying last used selection index

Extraction of individual sex

Number of individuals in each generation

Derive snapshot of selected individuals

Derive snapshot of selected individuals

Derive time point of generation

Export parametrization of fixed effects

Export parametrization of fixed effects

Name of traits

Export estimated SNP effects

Derive variance components

Derive variances components (add/dom)

Generate vcf-file

Exclude individuals from a database

Empirical kinship

Expected inbreeding

Manually enter breeding values

Manually enter estimated breeding values

Manually enter phenotypes

Manually enter phenotypes

Simulation of a breeding program based on a JSON-file from MoBPSweb

Development of genetic/breeding value

Approximate empirical kinship

Approximate empirical kinship

Empirical kinship

Derive expected kinship

Generate LD plot

Projection positive definite

Merging of cohorts

Generation of genomic traits

Miesenberger Index

Add miraculix-coding for genotypes

Mutation intro

Set new base generation

Breeding function

Optimal genetic contribution

Optimize generation cores

Derive pedigree relationship matrix

Simulation of a given pedigree

Internal function to perform imputing/phasing

Plot Population

Recalculate genomic values

Recalculate genomic values

Haldane recombination function

Rename a cohort

Row-wise Median

scaling.relationship

Set age points

Set class

Set defaults

Set differences between founder pool

Set time point

Apply sort and unique

Single Step GBLUP

Summary Population

Generation of a sublist

write.pedigree.mixblup