Construct Consensus Genetic Maps and Estimate Recombination Rates

Documentation for package ‘mapfuser’ version 0.1.2

calc_RMSE	Internal function to calculate the Root Mean Square Error to select the maximum interval size.
check_anchors	Replace sub-linkage groups (e.g. 1.1, 1.2) with truncated linkage group number and split per chromosome for easy integration
check_cM	internal position check
genphys_fit	Model the relationship between genetical and physical genome positions
LPmerge_par	Wrapper for multicore and multichromosome merging of maps using the LPmerge
map_cohesion	Graph check whether maps can be integrated
map_export	Convert a consensus genetic map created with mapfuser to JoinMap format
map_flip	Invert a linkage group
map_orient	Corrects orientation of input genetic maps
map_qc	Wrapper function of genetic map cleaning per linkage group.
map_split	Replace sub-linkage groups (e.g. 1.1, 1.2) with truncated linkage group number and split per chromosome for easy integration
plot.mapfuser	Visualise mapfuser object data
predict.mapfuser	Predict centiMorgan positions from fitted gam models on the mapfuser object
read_joinmap	Internal function, read genetic maps in JoinMap format
read_maps	Read genetic maps
read_ref	Load a reference map
remove_manual	Manually remove a linkage group within a specific map and update man networks and minimum spanning tree
select_result	Select result from mapfuser
summary.mapfuser	internal position check