RunΒΆ

  1. Enter the systematic_fits/ directory either in scnpc_tutorial/CR_Y_complex/ or scnpc_tutorial/NR_Y_complex/NR_Y_complex_de_novo_run/.

    Note

    These directories are available and should be retrieved from our git repository ScNPC_tutorial git repository.

  2. Run the fitting

    fit.py systematic_fitting_parameters.py

    The fitting runs will take two to three hours (~2-3h).

  3. The fit.py step will create and save all output to systematic_fits/result_fits_chimera. So, while in the systematic_fits/ folder, calculate p-values of resulting fits

    genpval.py result_fits_chimera

Note

For this tutorial you do not have to run Efitter (i.e. fit.py script) again as all the fitting results have been already calculated for you. In case you still want to run the generation of fit libraries then rename the dir result_fits_chimera/ and while in the systematic_fits/ dir run the steps from above.