FindLongestSeq: Find the longest sequence for each species from a list of...

In AnnotationBustR: Extract Subsequences from GenBank Annotations

Find the longest sequence for each species from a list of GenBank accession numbers.

Description

Find the longest sequence for each species from a list of GenBank accession numbers.

Usage

FindLongestSeq(Accessions, BatchSize = 300)

Arguments

Accessions	A vector of GenBank accession numbers.
BatchSize	Numeric. If the number of accessions is over the number provided, requests will be sent in batches of this amount. This is necessary for the NCBI servers. If you receive an HTTP 414 error, try to reduce the size of the batch. Default is 300.

Details

For a set of GenBank accession numbers, this will return the longest sequence for in the set for species.

Value

A list of genbank accessions numbers for the longest sequence for each taxon in a list of accession numbers.

Examples

#a vector of 4 genbank accessions, there are two accessions for each species.
genbank.accessions<-c("KP978059.1","KP978060.1","JX516105.1","JX516111.1")

#returns the longest sequence respectively for the two species.
long.seq.result <- FindLongestSeq(genbank.accessions)

AnnotationBustR documentation built on Sept. 1, 2026, 1:09 a.m.