# Simulate Experimental Crosses

## Documentation for package ‘simcross’ version 0.3-6

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

AILped | Example AIL pedigree
calc_Lstar | Calculate adjusted chromosome length for obligate chiasma
CCcolors | Collaborative Cross colors
check_pedigree | Check a pedigree for errors
collapse_do_alleles | Collapse alleles for simulated DO genotypes
convert2geno | Convert continuous allele information into marker genotypes
convert2geno_allchr | Convert continuous allele information into marker genotypes for multiple chromosomes
create_parent | Create a parent object
cross | Cross two individuals
get_geno | Get genotype at a single position
mouseL_cox | Mouse chromosome lengths
mouseL_mgi | Mouse chromosome lengths
plot_crosslines | Plot cross lines
plot_ind | Plot an individual
sim_4way_pedigree | Simulate pedigree for 4-way intercross
sim_ail_pedigree | Simulate AIL pedigree
sim_ail_pedigree_fix_n | Simulate AIL pedigree with fixed n
sim_crossovers | Simulate crossover locations using the Stahl model
sim_dof1_pedigree | Simulate pedigree for F1 between diversity outbreds and another inbred line
sim_do_pedigree | Simulate a pedigree for Diversity Outbred mice
sim_do_pedigree_fix_n | Simulate a pedigree for Diversity Outbreds for a target sample size
sim_from_pedigree | Simulate genotypes for pedigree
sim_from_pedigree_allchr | Simulate genotypes for pedigree for multiple chromosomes
sim_meiosis | Simulate meiosis
sim_ril_pedigree | Generate a ril pedigree
where_het | Find heterozygous regions