[Funcoup] KEGG pathways broken (?)

[Erik Sonnhammer]

Right, is the suggested limit of 100 to prevent excessively slow queries?

You're right that indiv. genes work with network dist = 1, but this may 
not be practical for large gene sets. Is there any reason to not allow 
it for network dist = 0 ?

/Erik

On 10/13/2011 02:47 PM, Andrey Alexeyenko wrote:
> Yes, they are simply not in the synonyms table yet :(
>
> The last time I mentioned it was related to the question:
> how we should limit such groups as KEGG or GO?
> I suggested that only groups with<100 genes can be queried.
>
> Whatever was the answer, I never was back to that, so this still has to
> be done (together with GO, maybe something else?)
>
> Indiv. genes must work. Note that they never work with distance set to 0.
>
> Andrey
>
>
> On 2011-10-13 14:44, Erik Sonnhammer wrote:
>> Alternatively, something is broken with the magenta nodes.  Even when
>> moving gene ids from the yellow to the magenta I get zilch magenta nodes
>> in the output.
>>
>> /Erik
>>
>> On 10/13/2011 02:40 PM, Erik Sonnhammer wrote:
>>> Andrey, either I forgot how to use it or it is broken, but I can't seem
>>> to get the KEGG pathways to work on the website.  If I put any KEGG id,
>>> e.g. KEGG00010 in the yellow box it just says.
>>>
>>> "The database does not contain the identifier(s) you have submitted.
>>> Please try other synonyms. "
>>>
>>> If I put real queries in the yellow box and pathways I know they are
>>> linked to in the magenta box, I get no magenta nodes.
>>>
>>> /Erik
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