analyze_gel
===========

.. py:module:: analyze_gel

.. autoapi-nested-parse::

   Add-on functions for electropherogram generation from an annotated gel image

   Author: Anja Hess

   Date: 2025-APR-15




Functions
---------

.. autoapisummary::

   analyze_gel.range_intersect
   analyze_gel.resize_img
   analyze_gel.remove_colors_from_img
   analyze_gel.analyze_gel


Module Contents
---------------

.. py:function:: range_intersect(r1, r2)

   Find intersection of two ranges

   :param r1: range
   :param r2: range
   :return: intersection



.. py:function:: resize_img(image)

   Resize each image (helpful for data storage)

   :param image_file: image array
   :return: resized image



.. py:function:: remove_colors_from_img(image, max_range=0.3)

   Remove colors from an image, especially colored arrows or marker annotations
   :param image: numpy array
   :param max_range: maximum color range to accept before making this black -> increasing = more tolerance
   :return: all colors now black.


.. py:function:: analyze_gel(image_file, run_id=None, marker_lane=0)

   Core function to generate a signal table from a DNA gel image.

   :param image_file: str, path to DNA gel image
   :return: multiple intermediate images to visualize the gel band detection are     generated and saved, finally the signal table is saved to disk and returned     along with the save_dir (str) and the error.