rnaCentralRetrieveEntry: Retrieves information for a specific entry of the RNAcentral...

In ncRNAtools: An R toolkit for non-coding RNA

Description

Retrieves information for a specific entry of the RNAcentral database. The retrieved information includes the corresponding sequence, the sequence length, a brief description of the sequence, the species where the sequence is found, the NCBI taxid of the species and the RNA type.

Usage

rnaCentralRetrieveEntry(rnaCentralID)

Arguments

rnaCentralID

string indicating the RNAcentral ID of the entry that should be retrieved. It must start with "URS".

Value

A list containing the following elements that correspond to the RNAcentral entry associated with the provided RNAcentral ID:

rnaCentralID	Query RNAcentral ID
sequence	RNA sequence of the retrieved entry
sequenceLength	length of the RNA sequence of the retrieved entry
description	short description of the retrieved entry
species	species where the sequence of the retrieved entry is found
ncbiTaxID	NCBI taxonomy identifier of the species corresponding to the retrieved entry
RNATypes	categories of RNA associated to the RNA sequence of the retrieved entry

References

https://rnacentral.org/about-us

https://rnacentral.org/api

Examples

# Retrieve information of the RNAcentral entry associated with ID URS00007C2D83_224308:

rnaCentralEntry <- rnaCentralRetrieveEntry("URS00007C2D83_224308")

# Extract the corresponding RNA sequence

rnaCentralEntry$sequence

ncRNAtools documentation built on Nov. 8, 2020, 8:14 p.m.