AILped                  Example AIL pedigree
CCcolors                Collaborative Cross colors
calc_Lstar              Calculate adjusted chromosome length for
                        obligate chiasma
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_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_dof1_pedigree       Simulate pedigree for F1 between diversity
                        outbreds and another inbred line
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
