Usage
get_nex(query, max_trees = "last()", returns = "tree", curl = getCurlHandle(), verbose = TRUE,
pause1 = 1, pause2 = 1, attempts = 5, only_metadata = FALSE)
Arguments
- query
- : a phylows formatted search, see
https://sourceforge.net/apps/mediawiki/treebase/index.php?title=API
- max_trees
- limits the number of trees returned
should be kept.
- returns
- should return the tree object or the
matrix (of sequences)
- curl
- the handle to the curl
- verbose
- a logical indicating if output should be
printed to screen
- pause1
- number of seconds to hesitate between
requests
- pause2
- number of seconds to hesitate between
individual files
- attempts
- number of attempts to access a particular
resource
Value
A list object containing all the trees matching the
search (of class phylo)
Description
imports phylogenetic trees from treebase. internal
function