Question: what is the best gene ontology enrichment analysis package to include the pipeline
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gravatar for jack
4.3 years ago by
jack750
Germany
jack750 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 • 2.8k views
ADD COMMENTlink modified 4.3 years ago by RamRS21k • written 4.3 years ago by jack750

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

ADD REPLYlink written 4.2 years ago by dago2.5k
3
gravatar for dago
4.3 years ago by
dago2.5k
Germany
dago2.5k 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 4.3 years ago by dago2.5k
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