encode_tree_mcpa - CLI interface

This tool encodes a phylogenetic tree into a matrix for use with MCPA.

encode_tree_mcpa [-h] [--config_file CONFIG_FILE]
                 tree_filename {newick,nexus,nexml} pam_filename output_matrix_filename

encode_tree_mcpa positional arguments

  • tree_filename - Path to tree to encode. (default: None)

  • tree_schema - The schema of the provided tree filename. (default: None)

  • pam_filename - File path to presence-absence matrix to use with the tree. (default: None)

  • output_matrix_filename - File path where the encoded tree matrix should be written. (default: None)

encode_tree_mcpa optional arguments

  • -h, --help - show this help message and exit

  • --config_file CONFIG_FILE - Path to configuration file. (default: None)