traits (version 0.2.0)

ncbi_byid: Retrieve gene sequences from NCBI by accession number.

Description

Retrieve gene sequences from NCBI by accession number.

Usage

ncbi_byid(ids, format = NULL, verbose = TRUE)

Arguments

ids

(character) GenBank ids to search for. One or more. Required.

format

(character) Return type, e.g., "fasta". NOW IGNORED.

verbose

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

Value

Data.frame of the form:

• taxon - taxonomic name (may include some junk, but hard to parse off)
• gene_desc - gene description
• gi_no - GI number
• acc_no - accession number
• length - sequence length
• sequence - sequence character string

Details

If bad ids are included with good ones, the bad ones are silently dropped. If all ids are bad you'll get a stop with error message.

See Also

ncbi_search, ncbi_getbyname

Examples

## Not run: 
# # A single gene
# ncbi_byid(ids="360040093")
# 
# # Many genes (with different accession numbers)
# ncbi_byid(ids=c("360040093","347448433"))
# ## End(Not run)