-
Notifications
You must be signed in to change notification settings - Fork 0
Core Project Schema Extensions
Robert J. Gifford edited this page Sep 30, 2024
·
4 revisions
At the heart of each GLUE project is a relational database with an extensible schema.
Parvovirus-GLUE extends GLUE's core schema with additional tables and data fields. These **schema extensions are defined in this project build file.
The sequence table of GLUE's core schema was extended to include the following additional fields:
Parameter | Type | Definition |
---|---|---|
full_name | VARCHAR | Full name of the virus this sequence is derived from |
name | VARCHAR | Abbreviated name of the virus this sequence is derived from |
gb_create_date | GenBank | GenBank creation date of the sequence |
gb_update_date | VARCHAR | Date of most recent GenBank update |
subfamily | VARCHAR | Taxonomy - virus subfamily |
genus | VARCHAR | Taxonomy - virus genus |
clade | VARCHAR | Taxonomy - virus clade |
length | INTEGER | Length of the sequence |
pubmed_id | INTEGER | PubMed ID of manuscript associated with GenBank entry |
A custom table was defined to capture isolate-associated information, as follows:
Parameter | Type | Definition |
---|---|---|
isolate | VARCHAR | Name of the isolate |
host_sci_name | VARCHAR | Scientific name of the isolation species |
country | VARCHAR | Country where virus was isolated |
country_iso | VARCHAR | ISO code of country where virus was isolated |
place_sampled | VARCHAR | Location of sampling (state, region, or city) |
collection_year | INTEGER | Year virus was isolated |
collection_month | VARCHAR | Month virus was isolated |
collection_month_day | INTEGER | Day of month virus was isolated |
Parvovirus-GLUE by Robert J Gifford Lab.
For questions, issues, or feedback, please open an issue on the GitHub repository.