Yunan Luo

Hi @NajirSeikh Right now it does not support the Windows environment. However, you can try setting up a Ubuntu in any virtual machine software available on Windows and run DTINet...

Hi @melooooooo Let's denote the element at the i-th row and the j-th column by A[i, j], then A[i, j]=1 means there is an interaction between drug i and drug...

Thanks for letting us know. Could you give us some examples of the duplicated proteins? Could you also clarify what you mean by "some influence"?

Hi, the sources of those data can be found in the "Data sets" section of our paper.

Hi, You can extract the predicted values from the `Zscoe` matrix, as did in our code https://github.com/luoyunan/DTINet/blob/725c5d04db5cc342eb4d84bce2872db0cfd6da8c/src/DTINet.m#L33 We recently released [PyDTINet](https://github.com/luoyunan/PyDTINet), a python version of DTINet, where you can easily...

I pushed a commit. Now you can use ECNet to predict for another new dataset. The following example shows how to train ECNet on single-mutant fitness data of RRM (passed...

Did you run the following two lines in our [installation instructions](https://github.com/luoyunan/ECNet#installation) in the README file? ```bash cd ECNet export PYTHONPATH=$PWD:$PYTHONPATH ``` Note that `ECNet` is the root directory of this...

Hi, Thanks for the great question! The definition of fitness score depends on the property one wants to measure. ECNet uses the fitness scores defined in the original reference. In...

Sorry for the belated response. You can see an example of training on single mutants and predicting for double mutants at https://github.com/luoyunan/ECNet/issues/5#issuecomment-1059797060

To generate the braw file, you need to install CCMPred from it's latest push rather than the release. You may also need to install the `msgpack` package on your system....