General Utilities

Arguments

arguments.parse_args()

Retrieve and parse arguments necessary for model creation

Parameters:

None –

Returns:

A namespace populated with all the attributes.

Combine results

combine_results.combine_results()

Takes nested array results of genes, mRNA, proteins, and time values and concatentates them into a single dataframe. :param - model: model object :param - xoutS_all: array of species values :type - xoutS_all: np.ndarray :param - xoutG_all: array of gene values :type - xoutG_all: np.ndarray :param - toutS_all: array of time values :type - toutS_all: np.ndarray

Output:

• pd.DataFrame: dataframe of concatenated results

Data handling

Files handling

files_handling.append_subfolder()

Append a subfolder to a folder path

Parameters:

• folder_path – The folder path.

• subfolder_name – The subfolder name.

Returns:

The subfolder’s path.

files_handling.check_path_existence()

files_handling.convert_excel_to_tsv()

Convert an Excel file to TSV (SPARCED’s standard input format)

This function creates a new .txt file at the same location than the passed Excel file.

Warning

This is some old code written four years ago, it hasn’t been tested since.

Parameters:

f_excel – The Excel sheet path.

Returns:

Nothing.