INBreast_XML_parser

Simple XML parser to create the annotation masks of the INBreast dataset

Required Libraries:

 os, cv2, math, numpy, pydicom, polygon from skimage.draw, xml.etree.ElementTree, pyplot from matplotlib

Note: The DICOM files were renamed in order to match the corresponding names in csv

Example:

 _Before preprocessing:_
 
 image name in csv: 2234546
 corresponding file: 2234546_hduiu2e8329398021.dcm
 
 _After preprocessing:_
 
 image name in csv: 2234546
 corresponding file: 2234546.dcm

Files and description:

INBreast_XML_parser
│    README.md
│
└─── python
│    │   annotation.py  #The main file containing the Annotation class
│    │   annotation_tb.py #A testbench for the tool
│   
│   
└─── notebook
     │   INbreast_xml_parser.ipynb #Colab/Jupyter notebook version of the tool

Installation

The INBreast_XML_parser can be cloned from here or it can be installed using Python pip tool

• Option 1: Clone the repository and see the demo files in python and notebook folders
• Option 2:
  • Install tool using pip3 install git+https://github.com/itzortzis/INBreast_XML_parser.git
  • Import the needed components import annotation

Enjoy!!!

INBreast dataset:

Inês C. Moreira, Igor Amaral, Inês Domingues, António Cardoso, Maria João Cardoso, Jaime S. Cardoso, INbreast: Toward a Full-field Digital Mammographic Database, Academic Radiology, Volume 19, Issue 2, 2012, Pages 236-248, ISSN 1076-6332, https://doi.org/10.1016/j.acra.2011.09.014. (https://www.sciencedirect.com/science/article/pii/S107663321100451X)