閱讀* .mhd/*。原始格式​​在python

Question

任何人都可以告訴我，我可以閱讀包含.mhd/ .raw文件在Python中的數據集？

Answer 1

最簡單的方法是使用SimpleITK（MedPy使用ITK的.mhd/.RAW文件也是如此）。命令

pip install SimpleITK 

適用於許多python版本。對於閱讀.mhd/.RAW您可以使用此代碼from kaggle

import SimpleITK as sitk 
import numpy as np 
''' 
This funciton reads a '.mhd' file using SimpleITK and return the image array, origin and spacing of the image. 
''' 

def load_itk(filename): 
    # Reads the image using SimpleITK 
    itkimage = sitk.ReadImage(filename) 

    # Convert the image to a numpy array first and then shuffle the dimensions to get axis in the order z,y,x 
    ct_scan = sitk.GetArrayFromImage(itkimage) 

    # Read the origin of the ct_scan, will be used to convert the coordinates from world to voxel and vice versa. 
    origin = np.array(list(reversed(itkimage.GetOrigin()))) 

    # Read the spacing along each dimension 
    spacing = np.array(list(reversed(itkimage.GetSpacing()))) 

    return ct_scan, origin, spacing 

Answer 2

你可以嘗試使用MedPy或本mhd_utils script

Answer 3

使用skimage安裝SimpleITK

import skimage.io as io 
img = io.imread('file.mhd', plugin='simpleitk') 

後，這會給你與Z A numpy的陣列可能會更容易，Y， x排序。