Question: what is the best gene ontology enrichment analysis package to include the pipeline
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gravatar for jack
5.1 years ago by
jack800
Germany
jack800 wrote:

I have developed a pipeline . I want to include the GO analysis also in my package. I'm looking for good R package which do GO analysis and eport the result as nice plots and graph.

Does anyone have some suggestions ?
 

ontology rna-seq R genome • 3.3k views
ADD COMMENTlink modified 5.1 years ago by RamRS25k • written 5.1 years ago by jack800

You could consider to accept the answer if you found it exhaustive.

ADD REPLYlink written 5.1 years ago by dago2.6k
3
gravatar for dago
5.1 years ago by
dago2.6k
Germany
dago2.6k wrote:

I found really  nice GOstats. You can then plot the results in ggplot.

Otherwise you can take a look also at topGO, which is quite easy and intuitive, or CompGO and clusterProfiler.

The latter should also have a function to make graph directly, if I am not wrong.

I hope this helps

ADD COMMENTlink written 5.1 years ago by dago2.6k
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