Yes, it is possible to use the configuration in the command line. You have two options for the export. First you can export it with the "Copy" button, it will export an actionstring which you can paste into the command line. Second, you can export the actions as a xml file and after it you can use this file in the command line.
The other options have to be added manually. Important options are:
-f, --format <format> output file format (default: smiles)
-o, --output <filepath> output file (default: standard output)
standardize -c standardizer_config.xml input.smiles -f sdf -o standardized_output.sdf