message: docs: add virus_properties.json to input files
diff: @@ -161,3 +161,44 @@ Note: the primers are processed differently depending on the primer type. The ty
  - `_R` - reverse primer
  - `_P` - probe
  +## Virus properties
  +
  +_Introduced in CLI version `1.10.0`, web `1.13.0`_
  +
  +Private mutations are split into 3 categories: reversion, labeled mutations and unlabeled mutations.
  +
  +Through the `virus_properties.json` config file, Nextclade is told which mutations to attach which labels to.
  +
  +Private mutations to a genotype listed in the file are given the labels given in the file.
  +
  +It is of the following schema (shortened for clarity):
  +
  +```json
  +{
  + "schemaVersion": "1.10.0",
  + "nucMutLabelMap": {
  + "174T": [
  + "20H"
  + ],
  + "204T": [
  + "20E",
  + "21J"
  + ],
  + }
  + "nucMutLabelMapReverse": {
  + "19A": [
  + "11083T",
  + "14805T",
  + "26144T"
  + ],
  + "19B": [
  + "8782T",
  + "9477A",
  + ]
  + }
  +}
  +```
  +
  +Nextclade Web (advanced mode): accepted in "Virus properties" drag & drop box.
  +
  +Nextclade CLI flag: `--virus-properties`
  