find_synteny_blocks.RdFind shared synteny blocks by comparing two genetics maps
find_synteny_blocks(map_list, max_cluster_range, max_nn_dist, min_block_size = 2, plots = FALSE)
| map_list | list, a 'map_list' object created by make_one_map |
|---|---|
| max_cluster_range | numeric, the maximum distance between markers for them to be considered in the same cluster |
| max_nn_dist | numeric, the maximum distance for a singleton to be considered an outlier |
| min_block_size | numeric, the minimum size of a synteny block |
| plots | logical, should plots be included as output? |
A list of length 3 containing synteny block assignments for each marker
# load data data(ann_pet_map) # convert data to a single ordered scale map_list <- make_one_map(ann_pet_map) # find synteny blocks synt_blocks <- find_synteny_blocks(map_list, max_clust_range = 2, max_nn_dist = 10, plots = TRUE)#> Error in find_synteny_blocks(map_list, max_clust_range = 2, max_nn_dist = 10, plots = TRUE): unused argument (max_clust_range = 2)