Bonferroni_alpha        Calculates individual significance level to be
                        used to achieve a global alpha (with
                        Bonferroni)
add_marker              Creates a new sequence by adding markers.
combine_onemap          Combine OneMap datasets
compare                 Compare all possible orders (exhaustive search)
                        for a given sequence of markers
create_data_bins        New dataset based on bins
create_dataframe_for_plot_outcross
                        Create a dataframe suitable for a ggplot2
                        graphic
draw_map                Draw a genetic map
draw_map2               Draw a linkage map
drop_marker             Creates a new sequence by dropping markers.
find_bins               Allocate markers into bins
group                   Assign markers to linkage groups
group_seq               Assign markers to preexisting linkage groups
make_seq                Create a sequence of markers
map                     Construct the linkage map for a sequence of
                        markers
map_func                Mapping functions Haldane and Kosambi
mapmaker_example_bc     Simulated data from a backcross population
mapmaker_example_f2     Simulated data from a F2 population
marker_type             Informs the segregation patterns of markers
mds_onemap              OneMap interface with MDSMap package with
                        possibilitie of multipoint distances estimation
onemap_example_bc       Simulated data from a backcross population
onemap_example_f2       Simulated data from a F2 population
onemap_example_out      Data from a full-sib family derived from two
                        outbred parents
onemap_example_riself   Simulated data from a RIL population produced
                        by selfing.
onemap_read_vcfR        Convert vcfR object to onemap object
order_seq               Search for the best order of markers combining
                        compare and try_seq functions
plot.onemap             Draw a graphic of raw data for any OneMap
                        population
plot.onemap_segreg_test
                        Plot p-values for chi-square tests of expected
                        segregation
plot_by_segreg_type     Draw a graphic showing the number of markers of
                        each segregation pattern.
print.onemap_segreg_test
                        Show the results of segregation tests
rcd                     Rapid Chain Delineation
read_mapmaker           Read data from a Mapmaker raw file
read_onemap             Read data from all types of progenies supported
                        by OneMap
record                  Recombination Counting and Ordering
rf_2pts                 Two-point analysis between genetic markers
rf_graph_table          Plots pairwise recombination fractions and LOD
                        Scores in a heatmap
ripple_seq              Compares and displays plausible alternative
                        orders for a given linkage group
select_segreg           Show markers with/without segregation
                        distortion
seriation               Seriation
set_map_fun             Defines the default mapping function
suggest_lod             Suggests a LOD Score for two point tests
test_segregation        test_segregation
test_segregation_of_a_marker
                        test_segregation_of_a_marker
try_seq                 Try to map a marker into every possible
                        position between markers in a given map
ug                      Unidirectional Growth
vcf2raw                 Convert variants from a VCF file to OneMap file
                        format
vcf_example_bc          Data generated from VCF file with biallelic
                        markers from a f2 backcross population
vcf_example_f2          Data generated from VCF file with biallelic
                        markers from a f2 intercross population
vcf_example_out         Data generated from VCF file with biallelic
                        markers from a full-sib family derived from two
                        outbred parents
vcf_example_riself      Data generated from VCF file with biallelic
                        markers from a RIL population produced by
                        selfing
write_map               Write a genetic map to a file
write_onemap_raw        Convert onemap object to onemap raw file
