Examples
=============

Installation/Usage:
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::

    pip install rda-toolbox

or

::

    pip install "git+https://github.com/Robotic-Discovery-of-Antiinfectives/rda-toolbox.git"


Expected/recommended file structure of a project:
*******************

.. code-block:: Bash
    Projektordner TEMPLATE/
    ├── code
    ├── data
    │   ├── input
    │   │   └── MIC_Input.xlsx
    │   ├── meta
    │   │   └── logs
    │   ├── processed
    │   ├── raw
    │   └── results
    ├── figures
    ├── methods
    │   └── module_01
    ├── readme.md
    └── report



Read raw data:
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.. code-block:: Python
    :linenos:

    #!/usr/bin/env python3

    import rda_toolbox as rda
    import glob

    rda.readerfiles_rawdf(glob.glob("path/to/raw/readerfiles/*"))


.. If you have multiple timepoints:

.. .. code-block:: Python
..     :linenos:

..     import rda_toolbox as rda
..     import os

..     timepoints_rawdata = dict()
..     # change "raw/data/path" to your raw data location
..     for timepoint in [f.path for f in os.scandir("raw/data/path") if f.is_dir()]:
..         timepoints_rawdata[os.path.basename(timepoint)] = rda.readerfiles_rawdf(
..             [os.path.join(timepoint, file) for file in os.listdir(timepoint)]
..         )

Visualize:
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