Check that all trees in the tree sequence are fully coalesced
ts_coalesced(ts, return_failed = FALSE)
Tree sequence object of the class
Report back which trees failed the coalescence check?
TRUE or FALSE value if
return_failed = FALSE, otherwise a vector of
(tskit Python 0-based) indices of trees which failed the coalescence test
check_dependencies(python = TRUE) # make sure dependencies are present # load an example model with an already simulated tree sequence slendr_ts <- system.file("extdata/models/introgression.trees", package = "slendr") model <- read_model(path = system.file("extdata/models/introgression", package = "slendr")) # load the tree-sequence object from disk ts <- ts_load(slendr_ts, model, simplify = TRUE) ts_coalesced(ts) # is the tree sequence fully coalesced? (TRUE or FALSE) #>  TRUE # returns a vector of tree sequence segments which are not coalesced not_coalesced <- ts_coalesced(ts, return_failed = TRUE)