Question: KEGGREST: how to retrieve compound list by pathway ID
0
gravatar for halehashki
22 months ago by
halehashki0
halehashki0 wrote:

Hello, I am not very familiar with KEPP API and KEGGREST. I want to get the list of compound by pathway ID. In Kegg API, I can get it by : http://rest.kegg.jp/link/cpd/map00362

But by using KEGGREST, I can't get that using KeggLink or any other command. I will be thankful if you help me out.

I am also confused by using KEGG API vs KEGGREST. Is there anyway to use LEGG API ( I mean the direct http link) in R or Python instead of using KEGGREST package?

Any help would be appreciated. Thanks for your time in advance.

keggrest • 1.4k views
ADD COMMENTlink modified 22 months ago by ApoorvaB230 • written 22 months ago by halehashki0
1

Perhaps this thread will assist: KEGGREST -- gene list (take a look at the answer of Damian).

Also take a look at my comment in the thread, where I give a quick example in R.

ADD REPLYlink written 22 months ago by Kevin Blighe53k
1
gravatar for ApoorvaB
22 months ago by
ApoorvaB230
United States
ApoorvaB230 wrote:

This should work

keggGet("pathway_id")[[1]]$COMPOUND

As for using the KEGG API in R, I'm not aware of it. You should be able to pull all the data you need using KEGGREST

ADD COMMENTlink modified 22 months ago • written 22 months ago by ApoorvaB230
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