extract_table: Download MalAvi Tables

In vincenzoaellis/malaviR: An R interface to MalAvi

Description

This function downloads the nine available MalAvi data tables.

Usage

extract_table(table = "Hosts and Sites Table")

Arguments

table

One of nine table names in quotes or "all" (see details). Defaults to "Hosts and Sites Table".

Details

The nine MalAvi tables are:

• "Hosts and Sites Table"

• "Table of References"

• "Grand Lineage Summary"

• "Parasite Summary Per Host"

• "Table of Lineage Names"

• "Morpho Species Summary"

• "Vector Data Table"

• "Other Genes Table"

• "Database Summary Report"

Alternatively, "all" will download all of the tables into a single list.

Value

Each table will be in the form of an object of class data.frame; however "all" will result in a list with each table as an element.

Author(s)

Vincenzo A. Ellis [e-mail]

References

Bensch S, Hellgren O, and Perez-Tris J. 2009. MalAvi: a public database of malaria parasites and related haemosporidians in avian hosts based on mitochondrial cytochrome b lineages. Molecular Ecology Resources 9: 1353-1358. http://mbio-serv2.mbioekol.lu.se/Malavi/

Examples

## download the "Table of References"
refs <- extract_table("Table of References")
head(refs) # take a look

vincenzoaellis/malaviR documentation built on Oct. 10, 2019, 10:55 p.m.