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