Check that all trees in the tree sequence are fully coalescedSource:
Check that all trees in the tree sequence are fully coalesced
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 init_env() #> The interface to all required Python modules has been activated. # 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)