ncbiSubmit: NCBI submission dates
In cstubben/genomes2: Genome sequencing project metadata

Description Usage Arguments Details Value Note Author(s) See Also Examples

Returns the date a sequence was submitted to NCBI using the Direct Submission line in the GenBank file

1	ncbiSubmit(term, db = "nuccore")

`term`	Any valid combination of Entrez search terms or a vector of accessions numbers
`db`	Entrez sequence database to search, default nuccore

Searches an Entrez sequence database, downloads GenBank files and parses the JOURNAL line containing a submitted date, for example, JOURNAL Submitted (03-SEP-1999) ....

a data.frame with accession, definition, and submitted date

If more than two submitted dates are found, then the earliest date is returned. This script uses E-fetch, so retrievals to the genome and other database will not work.

Chris Stubben

ncbiRelease

## Not run: 
#Yersinia pestis  reference sequences
ncbiSubmit("Yersinia pestis CO92[ORGN] AND refseq[FILTER]")
# Ebola virus - no patents or references
ebola<- ncbiSubmit("Ebolavirus[ORGN] NOT gbdiv_pat[PROP] NOT refseq[FILTER]")
head(ebola)
# a few early submissions may be missing
subset(ebola, is.na(submitted))
table(year(ebola$submit))

## End(Not run)