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cbrl-nuces / GOntoSim

Semantic Similarity
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one GO to multiple GOs ? #1

Closed BinhongLiu closed 1 year ago

BinhongLiu commented 1 year ago

Hi, I found that you've prepared two functions, Similarity_of_Two_GOTerms and Similarity_of_Set_of_GOTerms, for one GO to one GO and multiple GOs to multiple GOs calculation, respectively. However, I encountered that protein A had one GO annotation and B had multiple GO annotations. How should I deal with this calculation? Thanks! Best wishes!

A-Kamran commented 1 year ago

In this scenario, to calculate the similarity between Protein A (which has one GO annotation) and Protein B (which has multiple GO annotations), you can use the 'Similarity_of_Set_of_GOTerms' function. Here's how you can do it:

method = 'GOntoSim' Protein_A = ['GO:0004556'] Protein_B = ['GO:0004556', 'GO:2001070', 'GO:0005509', 'GO:0000287'] Similarity_of_Set_of_GOTerms(Protein_A, Protein_B, method )

This should provide you with the similarity score you need for your analysis. Hope this helps. If you have any more questions or need further assistance, feel free to ask!

Hi, I found that you've prepared two functions, Similarity_of_Two_GOTerms and Similarity_of_Set_of_GOTerms, for one GO to one GO and multiple GOs to multiple GOs calculation, respectively. However, I encountered that protein A had one GO annotation and B had multiple GO annotations. How should I deal with this calculation? Thanks! Best wishes!

BinhongLiu commented 1 year ago

Thanks for your prompt reply! It worked. Thanks.