Serbulent Unsal comments

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                                            Serbulent Unsal

Calculating Lin's Similarity if a gene in the pair is not annotated

Thanks, I think for the 0 calculation problem the order of the if controls needed to be changed in the function as below; ``` def lin_sim_calc(goid1, goid2, sim_r, termcnts): '''...

Calculating Lin's Similarity if a gene in the pair is not annotated

Thanks for your attention. Your approach will solve the problem but might be a bit conservative. Instead you might choose to regularize the calculation method by assigning 1 annotation to...

multithreading

Hello, I couldn't see the multihread option in any release nor in documentation after this comment. Is it implented or still in the waiting list ? Thanks, Serbulent

Protein vector readability

No, the issue is not technical, what I mean is you should map them one by one to your original protein list to access them later by using accesion id...

Interaction fetch not continue after connection error.

Thanks for your efforts but we have still have a missing parameter :) Constructing protein vectors.. ('Fetching interactions for', 'Entry', 'none') ('Fetching interactions for', 'A0A584', 'none') ('Fetching interactions for', 'Q9BXU3',...

Interaction fetch not continue after connection error.

It works now thanks.

Interaction fetch not continue after connection error.

After update the repo with at 23 Feb 2020. I'm experiencing this issue again with the error message below with command; `python getligprotvec.py drug.pubchem.canon.l8.ws20.txt` .... ``` Traceback (most recent call...

Interaction fetch not continue after connection error.

I get the error not for a specific protein instead get it randomly when trying to produce vectors for all human proteins. I retry it and get another connection error...

mgeneSim with Resnik measure produces incorrect results

I also can reproduce this with Rel also. hsGO