linkDB: Parse an input sequence into an Accession-based HTML link

In ababaian/palmid: Viral RNA Dependent RNA Polymerase Analysis Suite

Parse an input sequence into an Accession-based HTML link

Description

Parse an input sequence into an Accession-based HTML link

Usage

linkDB(
  accession,
  DB = "sra",
  base_url = "https://www.ncbi.nlm.nih.gov",
  label = "<acc>",
  prefix_text = NULL,
  suffix_text = NULL
)

Arguments

accession	character, SRA run_id accession to look-up
DB	character, GenBank database to prefix ["sra"]
base_url	character, URL ["https://www.ncbi.nlm.nih.gov/"]
label	character, Display string or accession var ["<acc>"]
prefix_text	character, prefix to add to label when using accession
suffix_text	character, suffix to add to label when using accession

Value

character, html link for click to search

Examples

# Standard SRA link database
db.link <- linkDB("ERR2756788")
db.link <- linkDB("SRR7287110", label = "Ginger The Cat")

# Link to BioSamples Database
db.link <- linkDB("SRR7287110", label = "Ginger The Cat")

ababaian/palmid documentation built on July 1, 2023, 1:09 a.m.