publications-class: An S4 class to represent a set of PGS Catalog Publications

In quincunx: REST API Client for the 'PGS' Catalog

An S4 class to represent a set of PGS Catalog Publications

Description

The publications object consists of two tables (slots), each a table that combined form a relational database of a subset of PGS Catalog Publications. Each publication is an observation (row) in the publications table (first table).

Slots

publications

A table of publications. Each publication (row) is uniquely identified by the pgp_id column. Columns:

pgp_id

PGS Publication identifier. Example: "PGP000001".

pubmed_id

PubMed identifier. Example: "25855707".

publication_date

Publication date. Example: "2020-09-28". Note that the class of publication_date is Date.

publication

Abbreviated name of the journal. Example: "Am J Hum Genet".

title

Publication title.

author_fullname

First author of the publication. Example: 'Mavaddat N'.

doi

Digital Object Identifier (DOI). This variable is also curated to allow unpublished work (e.g. preprints) to be added to the catalog. Example: "10.1093/jnci/djv036".

authors

Concatenated list of all the publication authors.

pgs_ids

A table of publication and associated PGS identifiers. Columns:

pgp_id

PGS Publication identifier. Example: "PGP000001".

pgs_id

Polygenic Score (PGS) identifier.

stage

PGS stage: either "gwas/dev" or "eval".

quincunx documentation built on June 8, 2025, 11:35 a.m.