taxize (version 0.3.0)

ncbi_getbyid: Retrieve gene sequences from NCBI by accession number.

Description

Retrieve gene sequences from NCBI by accession number.

Usage

ncbi_getbyid(ids, format = "fasta", verbose = TRUE)

Arguments

ids

GenBank ids to search for (character).

format

Return type, e.g., "fasta"

verbose

logical; If TRUE (default), informative messages printed.

Value

• Data.frame of results.

Details

Removes predicted sequences so you don't have to remove them. Predicted sequences are those with accession numbers that have "XM_" or "XR_" prefixes. This function retrieves one sequences for each species, picking the longest available for the given gene.

See Also

ncbi_search, ncbi_getbyname

Examples

# A single gene
ncbi_getbyid(ids="360040093", format="fasta")

# Many genes (with different accession numbers)
ncbi_getbyid(ids=c("360040093","347448433"), format="fasta")