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

Description Usage Arguments Value References Examples

View source: R/ncRNAtools_RNAcentralAccessFunctions.R

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

1

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

1
2
3
4
5
6
7
# Retrieve information of the RNAcentral entry associated with ID URS00007C2D83_224308:

rnaCentralEntry <- rnaCentralRetrieveEntry("URS00007C2D83_224308")

# Extract the corresponding RNA sequence

rnaCentralEntry$sequence

LaraSellesVidal/ncRNAtools documentation built on Oct. 17, 2020, 6:03 a.m.