Combine OneMap datasets
Compare all possible orders (exhaustive search) for a given sequence of
markers
Draw a genetic map
Creates a new sequence by dropping markers.
C++ routine for multipoint analysis in outcrossing populations
Data from a full-sib family derived from two outbred parents
Calculates individual significance level to be used to achieve a global alpha (with Bonferroni)
Creates a new sequence by adding markers.
New dataset based on bins
create_dataframe_for_plot_outcross
Create a dataframe suitable for a ggplot2 graphic
Construct the linkage map for a sequence of markers
Mapping functions Haldane and Kosambi
Simulated data from a F2 population
Search for the best order of markers combining compare and try_seq
functions
Simulated data from a backcross population
Simulated data from a F2 population
Draw a graphic showing the number of markers of each segregation pattern.
Create a sequence of markers
Draw a graphic of raw data for any OneMap population
Plot p-values for chi-square tests of expected segregation
Allocate markers into bins
Assign markers to linkage groups
Show the results of grouping markers to preexisting sequence
Show the results of segregation tests
Seriation
Assign markers to preexisting linkage groups
Defines the default mapping function
Suggests a LOD Score for two point tests
test_segregation
Read data from all types of progenies supported by OneMap
Recombination Counting and Ordering
Write a genetic map to a file
Informs the segregation patterns of markers
Internal onemap functions
Print method for object class 'rf_2pts'
Two-point analysis between genetic markers
Plots pairwise recombination fractions and LOD Scores in a heatmap
test_segregation_of_a_marker
test_segregation_of_a_marker
Show the results of grouping procedure
Compares and displays plausible alternative orders for a given linkage
group
Show markers with/without segregation distortion
Unidirectional Growth
Convert variants from a VCF file to OneMap file format
Print method for object class 'try'
Rapid Chain Delineation
Read data from a Mapmaker raw file
Try to map a marker into every possible position between markers
in a given map
Data generated from VCF file with biallelic markers from a f2 intercross population
Data generated from VCF file with biallelic markers from a full-sib family derived from two outbred parents