These resource-specific functions return a hyperlink to the relevant online
database/resource based on the provided identifier (id).
Usage
link_go(id, text = id, title = NULL, format = "html")
link_kegg(id, text = id, title = NULL, format = "html")
link_pubmed(id, text = id, title = NULL, format = "html")
link_entrez(id, text = id, title = NULL, format = "html")
link_cran(id, text = id, title = NULL, format = "html")
link_bioc(id, text = id, title = NULL, format = "html")
Arguments
id
valid identifier for the relevant online database
text
displayed text
title
link title, often used in tooltips
format
generate links using "html", "markdown" or "latex" syntax
Functions
link_go: to Gene Ontology Consortium
link_kegg: to KEGG Pathway Database
link_pubmed: to PubMed based on PMID (PubMed identifier)
link_entrez: to NCBI's database for gene-specific information based
on Entrez ID
link_cran: for R packages available from CRAN
link_bioc: for R packages available from Bioconductor
Link Customization
By default the hyperlinked text is just the id, so
link_pubmed("22066989") becomes
22066989. The text argument
allows you to customize the hyperlinked text. To display a hyperlinked URL
(e.g., https://www.r-project.org), set text = NULL.
Data Tags
For a few supported online resources, specially formatted tags can be passed
to the text and title arguments to display live data obtained from the
corresponding resource. For example, link_entrez("4609", text = "<symbol>"), produces MYC,
displaying the gene symbol rather than the Entrez ID. We could also set
title = "<description>" to produce a link that reveals the gene's
description when a user hovers over the link (using a supported browser).
link_go("GO:0005539", format = "html")
link_kegg("hsa04915", format = "html")
link_pubmed("22066989", format = "html")
link_entrez("4609", format = "html")