[BioC] Protein/peptide mass

[Sean Davis]

On 5/25/06 12:54 PM, "Robert Gentleman" <rgentlem at fhcrc.org> wrote:

> Sean,
>   Have you looked at using RCurl for this? I think that posting to and
> retreiving from forms based interfaces is what it does for a living...

Robert,

This is an excellent point.  That is clearly a better, more general
solution.  Just because I am reposting to the list, the url for the Rcurl
site is here:

http://www.omegahat.org/RCurl/

Sean

> Sean Davis wrote:
>> 
>> 
>> On 5/25/06 10:31 AM, "john seers (IFR)" <john.seers at bbsrc.ac.uk> wrote:
>> 
>>> 
>>> Hi Sean
>>> 
>>> 
>>> ========================================================================
>>> ======
>>> In that case, you can do something like this:
>>> 
>>>  x <- url(' 
>>> http://ca.expasy.org/cgi-bin/pi_tool?protein=MKWVTFISLLFLFSSAYS&resoluti
>>> on=m
>>> onoisotopic')
>>>  res <- readLines(x)
>>>  
>>> ========================================================================
>>> ======
>>> 
>>> That looks like exactly what I need, especially if I can put in all the
>>> variations for modifications etc. Can you tell me where I can see the
>>> various options?
>> 
>> To post to servers like this, you have to know a little bit about HTML, and
>> particularly about how forms are described on the page.  As a start, go to
>> the page you are interested in using and do "View Source" from your browser.
>> If you read through the page, you will see various "INPUT" tags that
>> describe the controls you see on the rendered page.  They need to be set as
>> key=value pairs as shown in the URL I sent.  On the particular website I
>> chose (http://ca.expasy.org/tools/pi_tool.html), there looks to be very few
>> options.  
>> 
>> Sean
>> 
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