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Image-Analysis

A repository of code to analyze images of microbial colonies growing on petri dishes.

##Authors Ken Locey, Ph.D.
William R. Shoemaker

Files & Folders

morphotype_project:

python: A directory containing python scripts for analyzing images with various tools (scikit, machine learning, PIL library).

photos: Contains one test photo (test.png) of a petri dish culture, for use in developing image analysis code.

results: A directory containing results of image analysis from testing. This directory is not project specific.

##Useful links: https://scipy-lectures.github.io/advanced/image_processing/

http://opencv-python-tutroals.readthedocs.org/en/latest/py_tutorials/py_setup/py_intro/py_intro.html

http://docs.scipy.org/doc/scipy/reference/generated/scipy.ndimage.measurements.find_objects.html#scipy.ndimage.measurements.find_objects

http://opencv-python-tutroals.readthedocs.org/en/latest/py_tutorials/py_gui/py_image_display/py_image_display.html

http://scikit-learn.org/stable/modules/generated/sklearn.cluster.Birch.html#sklearn.cluster.Birch

http://www.learnopencv.com/applycolormap-for-pseudocoloring-in-opencv-c-python/

http://docs.opencv.org/3.0-beta/doc/py_tutorials/py_imgproc/py_thresholding/py_thresholding.html

http://docs.opencv.org/3.0-beta/doc/py_tutorials/py_gui/py_image_display/py_image_display.html

http://www.shervinemami.info/openCV.html

http://scikit-image.org/docs/dev/auto_examples/plot_blob.html

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##Issues

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A repository of code to analyze images of petri dishes

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