Files in beastier
Call 'BEAST2'

MD5
NAMESPACE
DESCRIPTION
build/vignette.rds
R/create_beast2_validate_cmd.R R/is_on_ci.R R/do_minimal_run.R R/run_beast2_from_options.R R/get_trees_filenames.R R/check_beast2_path.R R/create_random_alignment.R R/check_rng_seed.R R/default_params_doc.R R/are_beast2_input_lines.R R/get_beast2_example_filenames.R R/get_java_version.R R/get_default_beast2_folder.R R/get_beast2_version.R R/beast2_internal_filenames_to_table.R R/beastier.R R/get_default_beast2_bin_path.R R/create_temp_input_filename.R R/get_beast2_main_class_name.R R/is_beast2_input_file.R R/get_alignment_ids.R R/has_unique_ids.R R/print_beast2_options.R R/print_beast2_internal_filenames.R R/create_temp_state_filename.R R/is_jar_path.R R/save_nexus_as_fasta.R R/get_beast2_options_filenames.R R/gives_beast2_warning.R R/remove_file_if_present.R R/beast2_options_to_table.R R/get_path.R R/get_default_beast2_jar_path.R R/check_beast2.R R/check_os.R R/check_beast2_options_do_not_overwrite_existing_files.R R/is_bin_path.R R/check_input_filename.R R/run_beast2.R R/get_duplicate_param_ids.R R/get_default_beast2_download_url.R R/check_beast2_options.R R/get_beast2_example_filename.R R/uninstall_beast2.R R/get_default_beast2_version.R R/create_beast2_options.R R/create_beast2_internal_filenames.R R/is_beast2_installed.R R/check_can_create_file.R R/create_random_fasta.R R/get_default_beast2_path.R R/update_beastier.R R/is_alignment.R R/install_beast2.R R/create_beast2_run_cmd.R R/beastier_report.R R/get_default_java_path.R R/upgrade_beast2.R R/check_beast2_internal_filenames.R R/create_random_phylogeny.R R/get_paths.R R/rename_beast2_options_filenames.R R/are_identical_alignments.R R/check_beast2_optionses.R R/create_beast2_version_cmd.R R/check_n_threads.R R/save_lines.R
vignettes/beastier_logo.png
vignettes/demo.Rmd man/get_default_beast2_version.Rd man/get_beast2_example_filenames.Rd man/is_alignment.Rd man/check_beast2.Rd man/get_default_java_path.Rd man/get_beast2_version.Rd man/create_beast2_version_cmd.Rd man/check_beast2_options_names.Rd man/check_beast2_path.Rd man/check_n_threads.Rd man/create_beast2_options.Rd man/get_default_beast2_folder.Rd man/get_default_beast2_path.Rd man/get_beast2_main_class_name.Rd man/do_minimal_run.Rd man/print_beast2_options.Rd man/get_default_beast2_download_url_linux.Rd man/check_beast2_optionses.Rd man/check_beast2_options_do_not_overwrite_existing_files.Rd man/check_beast2_internal_filenames_names.Rd man/run_beast2_from_options.Rd man/save_nexus_as_fasta.Rd man/check_beast2_internal_filenames_data_types.Rd man/is_on_ci.Rd man/get_beastier_path.Rd man/is_on_travis.Rd man/get_java_version.Rd man/create_beast2_validate_cmd_bin.Rd man/beastier_report.Rd man/is_beast2_installed.Rd man/upgrade_beast2.Rd man/check_beast2_options_data_types.Rd man/rename_beast2_options_filenames.Rd man/install_beast2.Rd man/uninstall_beast2.Rd man/is_bin_path.Rd man/are_identical_alignments.Rd man/check_rng_seed.Rd man/get_default_beast2_jar_path.Rd man/check_os.Rd man/create_temp_input_filename.Rd man/create_beast2_validate_cmd_jar.Rd man/check_input_filename.Rd man/get_default_beast2_download_url_win.Rd man/get_default_beast2_bin_path.Rd man/create_beast2_validate_cmd.Rd man/get_duplicate_param_ids.Rd man/update_beastier.Rd man/get_beast2_options_filenames.Rd man/get_default_beast2_download_url.Rd man/check_beast2_options.Rd man/gives_beast2_warning.Rd man/are_beast2_input_lines.Rd man/create_beast2_internal_filenames.Rd man/check_beast2_internal_filenames_filenames_differ.Rd man/beastier.Rd man/create_beast2_version_cmd_bin.Rd man/get_alignment_ids_from_xml_filename.Rd man/create_beast2_version_cmd_jar.Rd man/beast2_internal_filenames_to_table.Rd man/check_beast2_options_filenames_differ.Rd man/save_lines.Rd man/is_on_appveyor.Rd man/check_can_create_file.Rd man/create_temp_state_filename.Rd man/are_beast2_input_lines_fast.Rd man/has_unique_ids.Rd man/get_beastier_paths.Rd man/beast2_options_to_table.Rd man/check_beast2_internal_filenames.Rd man/print_beast2_internal_filenames.Rd man/remove_file_if_present.Rd man/are_beast2_input_lines_deep.Rd man/get_trees_filenames.Rd man/default_params_doc.Rd man/run_beast2.Rd man/get_beast2_example_filename.Rd man/is_jar_path.Rd man/create_beast2_run_cmd.Rd man/is_beast2_input_file.Rd
man/figures/Codecov.png
man/figures/beastier_logo.png
man/figures/TravisCI.png
man/figures/AppVeyor.png
inst/CITATION
inst/WORDLIST
inst/doc/demo.html
inst/doc/demo.R inst/doc/demo.Rmd
inst/extdata/beast2_error.xml
inst/extdata/2_4.xml
inst/extdata/test_output_2.fas
inst/extdata/anthus_15_15.xml
inst/extdata/beast2_example_output.log
inst/extdata/anthus_15_na.xml
inst/extdata/read_beast2_trees_example.trees
inst/extdata/anthus_15_26.xml
inst/extdata/anthus_nd2.fas
inst/extdata/README.md
inst/extdata/beast2_warning.xml
inst/extdata/anthus_na_15.xml
inst/extdata/anthus_15_15_long.xml
inst/extdata/anthus_2_4.xml
inst/extdata/beast2_example_output.xml
inst/extdata/anthus_aco.fas
inst/extdata/nested_sampling.xml
inst/extdata/anthus_na_na.xml
inst/extdata/beast2_example_output.trees
inst/extdata/beast2_example_output.xml.state
beastier documentation built on Aug. 7, 2020, 5:07 p.m.