Question: topGO: how to rettrieve (long) GO term description without abbreviating
1
gravatar for al-ash
13 months ago by
al-ash20
al-ash20 wrote:

topGO returns in the result table of enriched GO terms GO term descriptions. But longer description is abbreviated with "..." as in the attached part of topGO result table (first two columns of results). Is there a way how to retrieve directly from topGO the non-truncated term descriptions? (I'd like to use it for construction of word cloud).

  GO.ID                                        Term 
1  GO:0006457                             protein folding       
2  GO:0006352     DNA-templated transcription, initiation      
7  GO:0006367 transcription initiation from RNA polyme...      
10 GO:0015991     ATP hydrolysis coupled proton transport      
27 GO:0042073                      intraciliary transport       
topgo • 259 views
ADD COMMENTlink written 13 months ago by al-ash20
1

Perhaps you can use a workaround looking into the GO.db package for the terms of these ids.
 

ADD REPLYlink written 13 months ago by Lluís Revilla Sancho500

Yes, thanks for suggesting the package.
I'm now indeed using  Term() function from GO.db package to retrieve terms for ids...I was just wondering if I'm not missing an argument in topGO which would do it directly.

ADD REPLYlink modified 13 months ago • written 13 months ago by al-ash20

I haven't been using topGO for a while, but I think it could output the whole term name, but maybe it is not displayed (or I could be wrong).

ADD REPLYlink written 13 months ago by Lluís Revilla Sancho500
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 290 users visited in the last hour