Man pages for onemap
Construction of Genetic Maps in Experimental Crosses: Full-Sib, RILs, F2 and Backcrosses

add_markerCreates a new sequence by adding markers.
Bonferroni_alphaCalculates individual significance level to be used to...
combine_onemapCombine OneMap datasets
compareCompare all possible orders (exhaustive search) for a given...
create_data_binsNew dataset based on bins
create_dataframe_for_plot_outcrossCreate a dataframe suitable for a ggplot2 graphic
draw_mapDraw a genetic map
draw_map2Draw a linkage map
drop_markerCreates a new sequence by dropping markers.
est_map_hmm_outC++ routine for multipoint analysis in outcrossing...
find_binsAllocate markers into bins
groupAssign markers to linkage groups
group_seqAssign markers to preexisting linkage groups
make_seqCreate a sequence of markers
mapConstruct the linkage map for a sequence of markers
map_funcMapping functions Haldane and Kosambi
mapmaker_example_bcSimulated data from a backcross population
mapmaker_example_f2Simulated data from a F2 population
marker_typeInforms the segregation patterns of markers
mds_onemapOneMap interface with MDSMap package with possibilitie of...
onemap_example_bcSimulated data from a backcross population
onemap_example_f2Simulated data from a F2 population
onemap_example_outData from a full-sib family derived from two outbred parents
onemap_example_riselfSimulated data from a RIL population produced by selfing.
onemap-internalInternal onemap functions
onemap_read_vcfRConvert vcfR object to onemap object
order_seqSearch for the best order of markers combining compare and...
plot_by_segreg_typeDraw a graphic showing the number of markers of each...
plot.onemapDraw a graphic of raw data for any OneMap population
plot.onemap_segreg_testPlot p-values for chi-square tests of expected segregation
print.groupShow the results of grouping procedure
print.group_seqShow the results of grouping markers to preexisting sequence
print.onemap_segreg_testShow the results of segregation tests
print.rf_2ptsPrint method for object class 'rf_2pts'
print.tryPrint method for object class 'try'
rcdRapid Chain Delineation
read_mapmakerRead data from a Mapmaker raw file
read_onemapRead data from all types of progenies supported by OneMap
recordRecombination Counting and Ordering
rf_2ptsTwo-point analysis between genetic markers
rf_graph_tablePlots pairwise recombination fractions and LOD Scores in a...
ripple_seqCompares and displays plausible alternative orders for a...
select_segregShow markers with/without segregation distortion
set_map_funDefines the default mapping function
suggest_lodSuggests a LOD Score for two point tests
try_seqTry to map a marker into every possible position between...
ugUnidirectional Growth
vcf2rawConvert variants from a VCF file to OneMap file format
vcf_example_bcData generated from VCF file with biallelic markers from a f2...
vcf_example_f2Data generated from VCF file with biallelic markers from a f2...
vcf_example_outData generated from VCF file with biallelic markers from a...
vcf_example_riselfData generated from VCF file with biallelic markers from a...
write_mapWrite a genetic map to a file
write_onemap_rawConvert onemap object to onemap raw file
onemap documentation built on Sept. 20, 2019, 9:04 a.m.