Answer: Retrieving sequences from NCBI
11.4 years ago by
On Fri, Jul 11, 2008 at 1:08 PM, J. Miguel Marin
<jmmarin at="" est-econ.uc3m.es=""> wrote:
> Thank you very much Sean,
> I have found also the command "getSEQ" from the library "annotate"
Yep. That will work. Just keep in mind that you need to respect the
NCBI access limits (only during certain hours, and with a sleep() of
some seconds between calls; see the NCBI website for details) or they
WILL block access. In other words, be very careful if using this type
of command in a loop.
>> On Wed, Jul 9, 2008 at 4:16 PM, J. Miguel Marin
>> <jmmarin at="" est-econ.uc3m.es=""> wrote:
>>> Dear users,
>>> I do not know whether this is a very simple question but I could
>>> by myself...
>>> I would like to know if there exists in Bioconductor something
>>> matlab command "getgenbank". It serves to retrieve sequence
>>> the GenBank database in a simple way, and to download just the
>>> analyze them.
>>> I have seen the GEOquery and seqinr libraries but I could not
>>> given mitochondrial sequences.
>> Eutils can be used for this.
> J. Miguel Marin
> Dep. of Statistics
> University Carlos III of Madrid
> Spain (E.U.)