diff --git a/phylogenetic/defaults/clade-i/auspice_config_inrb.json b/phylogenetic/defaults/clade-i/auspice_config_inrb.json new file mode 100644 index 0000000..e90b661 --- /dev/null +++ b/phylogenetic/defaults/clade-i/auspice_config_inrb.json @@ -0,0 +1,86 @@ +{ + "title": "Genomic epidemiology of mpox clade I viruses: INRB build", + "maintainers": [ + {"name": "INRB"}, + {"name": "Nextstrain team", "url": "http://nextstrain.org"} + ], + "data_provenance": [ + { + "name": "GenBank", + "url": "https://www.ncbi.nlm.nih.gov/genbank/" + } + ], + "build_url": "https://github.com/nextstrain/mpox", + "colorings": [ + { + "key": "region", + "title": "Region", + "type": "categorical" + }, + { + "key": "country", + "title": "Country", + "type": "categorical" + }, + { + "key": "division", + "title": "Province", + "type": "categorical" + }, + { + "key": "location", + "title": "Health Zone", + "type": "categorical" + }, + { + "key": "source_private", + "title": "INRB (private data)", + "type": "boolean" + }, + { + "key": "host", + "title": "Host", + "type": "categorical" + }, + { + "key": "GA_CT_fraction", + "title": "G→A or C→T fraction", + "type": "continuous" + }, + { + "key": "dinuc_context_fraction", + "title": "NGA/TCN context of G→A/C→T mutations", + "type": "continuous" + }, + { + "key": "recency", + "title": "Submission Recency", + "type": "categorical" + }, + { + "key": "date_submitted", + "title": "Release Date", + "type": "categorical" + }, + { + "key": "date", + "title": "Collection date", + "type": "categorical" + } + ], + "geo_resolutions": [ + "country" + ], + "display_defaults": { + "color_by": "country", + "map_triplicate": true, + "distance_measure": "num_date", + "transmission_lines": false + }, + "filters": [ + "country", + "region", + "recency", + "host" + ] +}