computing the functional similarity using the schlicker method
Hello, this my first post
I working a c++ project for computing the functional similarity for 2 proteins of different species using the schlicker method.
Could anyone help me plz, thank you in advance.
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You probably have something done by now (as in, have some code written), and hit a problem you can't solve, right? So describe what you have done and the problem you found, then someone can help. Code and suggestions will not appear here out of the blue.
What is the question ? What help do you need ? What is the schlicker method ? I assume you're referring to the semantic similarity measure by Schlicker et al. If you want to implement it, please read the paper. If you want to use it, there's an implementation of it in the R Bioconductor package GoSemSim.
I am working on a PPI network alignment project based on their functional and topological similarity. I need to know how can I implement Schlicker semantic similarity measurement. I tried to follow some a c++ project but I had a lot of problems in the compilation.
It seems to me then that this is more of a C++ question. You'll be better off asking on StackOverflow. If you don't need a C++ implementation, I would suggest re-using existing tools like what's available in R.
If C++ is hard, you can prototype your code in Python or Perl, then you can try to port it to C++