gb_sequence_get: Get sequence from GenBank

In restez: Create and Query a Local Copy of 'GenBank' in R

Get sequence from GenBank

Description

Return the sequence(s) for a record(s) from the accession ID(s).

Usage

gb_sequence_get(id, dnabin = FALSE)

Arguments

id	character, sequence accession ID(s)
dnabin	Logical vector of length 1; should the sequences be returned using the bit-level coding scheme of the ape package? Default FALSE.

Details

For more information about the dnabin format, see ape::DNAbin().

Value

named vector of sequences, if no results found NULL

See Also

ncbi_acc_get()

Other get: gb_definition_get(), gb_fasta_get(), gb_organism_get(), gb_record_get(), gb_version_get()

Examples

library(restez)
restez_path_set(filepath = tempdir())
demo_db_create(n = 5)
(seq <- gb_sequence_get(id = 'demo_1'))
(seqs <- gb_sequence_get(id = c('demo_1', 'demo_2')))
(fasta_dnabin <- gb_sequence_get(id = 'demo_1', dnabin = TRUE))

# delete demo after example
db_delete(everything = TRUE)

restez documentation built on Oct. 25, 2023, 5:06 p.m.