publications-class

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 <code>publications</code> table
(first table).

Programmatic access to the 'PGS' Catalog.
This package provides easy access to 'PGS' Catalog data by
accessing the REST API <https://www.pgscatalog.org/rest/>.

Ramiro Magno

quincunx

REST API Client for the 'PGS' Catalog

Isabel Duarte

Ana-Teresa Maia

CINTESIS 

Pattern Institute 

publications-class function

<dl>
<dt><code>publications</code></dt>
<dd>A table of publications. Each publication (row) is
uniquely identified by the <code>pgp_id</code> column. Columns:<dl>
<dt>pgp_id</dt>
<dd>PGS Publication identifier. Example: <code>"PGP000001"</code>.</dd></dl></dd></dl><dt>pubmed_id</dt>
<dd><a href="https://en.wikipedia.org/wiki/PubMed">PubMed</a>
identifier. Example: <code>"25855707"</code>.</dd><dt>publication_date</dt>
<dd>Publication date. Example: <code>"2020-09-28"</code>. Note
that the class of <code>publication_date</code> is <code><a href="/link/Date?package=quincunx&version=0.1.7" data-mini-rdoc="quincunx::Date">Date</a></code>.</dd><dt>publication</dt>
<dd>Abbreviated name of the journal. Example: <code>"Am J Hum
Genet"</code>.</dd><dt>title</dt>
<dd>Publication title.</dd><dt>author_fullname</dt>
<dd>First author of the publication. Example:
<code>'Mavaddat N'</code>.</dd><dt>doi</dt>
<dd>Digital Object Identifier (DOI). This variable is also curated to
allow unpublished work (e.g. preprints) to be added to the catalog. Example:
<code>"10.1093/jnci/djv036"</code>.</dd><dt>authors</dt>
<dd>Concatenated list of all the publication authors.</dd>

<dt><code>pgs_ids</code></dt>
<dd>A table of publication and associated PGS identifiers. Columns:<dl>
<dt>pgp_id</dt>
<dd>PGS Publication identifier. Example: <code>"PGP000001"</code>.</dd></dl></dd><dt>pgs_id</dt>
<dd>Polygenic Score (PGS) identifier.</dd><dt>stage</dt>
<dd>PGS stage: either "gwas/dev" or "eval".</dd>

Slots

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

<dl>
<dt><code>publications</code></dt>
<dd>A table of publications. Each publication (row) is
uniquely identified by the <code>pgp_id</code> column. Columns:<dl>
<dt>pgp_id</dt>
<dd>PGS Publication identifier. Example: <code>"PGP000001"</code>.</dd>

<dt>pubmed_id</dt>
<dd><a href='https://en.wikipedia.org/wiki/PubMed'>PubMed</a>
identifier. Example: <code>"25855707"</code>.</dd>

<dt>publication_date</dt>
<dd>Publication date. Example: <code>"2020-09-28"</code>. Note
that the class of <code>publication_date</code> is <code><a href='https://rdrr.io/r/base/Dates.html'>Date</a></code>.</dd>

<dt>publication</dt>
<dd>Abbreviated name of the journal. Example: <code>"Am J Hum
Genet"</code>.</dd>

<dt>title</dt>
<dd>Publication title.</dd>

<dt>author_fullname</dt>
<dd>First author of the publication. Example:
<code>'Mavaddat N'</code>.</dd>

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

<dt>authors</dt>
<dd>Concatenated list of all the publication authors.</dd>


</dl></dd>


<dt><code>pgs_ids</code></dt>
<dd>A table of publication and associated PGS identifiers. Columns:<dl>
<dt>pgp_id</dt>
<dd>PGS Publication identifier. Example: <code>"PGP000001"</code>.</dd>

<dt>pgs_id</dt>
<dd>Polygenic Score (PGS) identifier.</dd>

<dt>stage</dt>
<dd>PGS stage: either "gwas/dev" or "eval".</dd>


</dl></dd>


</dl>

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

Description

Arguments

Slots