4.7. beast_to_auspice

Visualize BEAST output with Nextstrain. This workflow converts a BEAST MCC tree (.tree file) into an Auspice v2 json file. See https://nextstrain-augur.readthedocs.io/en/stable/faq/import-beast.html for details.

4.7.1. Inputs

4.7.1.1. Required inputs

beast_to_auspice.beast_mcc_tree
File — Default: None
A maximum clade credibility (MCC) tree (.tree file) that is output from a BEAST run.

beast_to_auspice.export_auspice_json.auspice_config
File — Default: None
???

4.7.1.2. Other inputs

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beast_to_auspice.augur_import_beast.docker
String — Default: "nextstrain/base"
???

beast_to_auspice.augur_import_beast.machine_mem_gb
Int? — Default: None
???

beast_to_auspice.augur_import_beast.most_recent_tip_date
Float? — Default: None
???

beast_to_auspice.augur_import_beast.tip_date_delimiter
String? — Default: None
???

beast_to_auspice.augur_import_beast.tip_date_format
String? — Default: None
???

beast_to_auspice.augur_import_beast.tip_date_regex
String? — Default: None
???

beast_to_auspice.export_auspice_json.color_by_metadata
Array[String]? — Default: None
???

beast_to_auspice.export_auspice_json.colors_tsv
File? — Default: None
???

beast_to_auspice.export_auspice_json.description_md
File? — Default: None
???

beast_to_auspice.export_auspice_json.docker
String — Default: "nextstrain/base"
???

beast_to_auspice.export_auspice_json.geo_resolutions
Array[String]? — Default: None
???

beast_to_auspice.export_auspice_json.lat_longs_tsv
File? — Default: None
???

beast_to_auspice.export_auspice_json.machine_mem_gb
Int? — Default: None
???

beast_to_auspice.export_auspice_json.maintainers
Array[String]? — Default: None
???

beast_to_auspice.export_auspice_json.sample_metadata
File? — Default: None
???

beast_to_auspice.export_auspice_json.title
String? — Default: None
???

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