Django-scripts.md

@@ -8,6 +8,57 @@ In this section, you will find a list of homemade commands available through `ma
 
 *The following list might not correspond exactly to the scripts available. We recommend to go through the help section of the `manage.py` command.*
 
+To run a script, in the backend docker container or in a custom python env:
+
+```
+manage.py your_script
+manage.py help your_script  # Display instructions
+```
+
 ### Pre-build scripts from Django
 
 For all scripts from Django, Please refer to the [original documentation](https://docs.djangoproject.com/en/3.1/ref/django-admin/).
+
+### Custom scripts
+
+#### Test DB
+
+* create_light_db
+
+#### Populate the database
+
+##### Import annotations
+
+###### KEGG
+
+* create_update_kegg_ko
+
+###### EggNOG
+
+* create_update_eggnog
+* create_eggnog_functional_cat
+
+###### Taxonomy
+
+* build_hierarchy
+
+##### Import genes
+
+###### General rules
+
+###### IGC
+
+* import_igc_annotation
+* import_igc_sequences
+
+###### Virgo
+
+* import_virgo_eggnog
+* import_virgo_genes
+* import_virgo_kegg
+* import_virgo_sequences
+* import_virgo_taxonomy
+
+#### Pre computed metrics
+
+* compute_stats