getProt: Retrieve Protein Sequence in various Formats from Databases

In Rcpi: Molecular Informatics Toolkit for Compound-Protein Interaction in Drug Discovery

Description

Retrieve Protein Sequence in various Formats from Databases

Usage

getProt(id, from = c("uniprot", "kegg", "pdb"), type = c("fasta",
  "pdb", "aaseq"), parallel = 5)

Arguments

id	A character vector, as the protein ID(s).
from	The database, one of 'uniprot', 'kegg', or 'pdb'.
type	The returned protein format, one of fasta, pdb, or aaseq.
parallel	An integer, the parallel parameter, indicates how many process the user would like to use for retrieving the data (using RCurl), default is 5. For regular cases, we recommend a number less than 20.

Details

This function retrieves protein sequence in various formats from three databases.

Value

A length of id character list, each element containing the corresponding protein sequence(s) or file(s).

Author(s)

Nan Xiao <https://nanx.me>

See Also

See getDrug for retrieving drug molecules from five databases.

Examples

id = c('P00750', 'P00751', 'P00752')

getProt(id, from = 'uniprot', type = 'aaseq')

Rcpi documentation built on Nov. 8, 2020, 8:23 p.m.