Installing Python and Utilities in MacOS (french version)

 

Step-by-step tutorial to install python and utilities on MacOS. Here is the french version...

Creating a Virtual Environment in Windows (french version)

 

Step-by-step tutorial to install python and utilities on Windows. Here is the french version...

Installing Python in Windows (french version)

 

Step-by-step tutorial to install python and utilities on Windows. Here is the french version...

Installing python, utilities and packages (french version)

 

 

 A new series dedicated to Image Processing with the programming language Python. The first step is to install all the Python programming environment to manipulate and explore images.

Lines Detection: Use of the Radon Transform

 The classical approach to detect lines in an image is the Hough Transform. Here I'll present another alternative based on the Radon Transform (seen in my Learning Tomography series [see TOC]).

Python - Table of Contents

Section dedicated to Python and image manipulation

Playing with Phase and Magnitude

 

In this series dedicated to the Fourier Transform, it is important to understand the role played by magnitude (or amplitude) and phase in an image...

Model bias in cryo-EM - Einstein from noise

 

 
 
In the article of Maxim Shatsky et al.  entitled "A Method for the Alignment of Heterogeneous Macromolecules from Electron Microscopy" (J Struct Biol. 2009, 166(1): 67–78. doi:10.1016/j.jsb.2008.12.008.), the authors show that pure noise images aligned to a reference image give an average image resembling the reference. This is a perfect example of the model bias occurring during the 2D classification step. Let's do it!!!

Cryo-EM Table of Contents

Section dedicated to Cryo-Electron Microscopy and ImageJ

Case study: The target

In this case study, we want to count the number of points obtained in this shooting session.

Normal Map of a sphere using ImageJ

 A small script for creating a normal map of a sphere using ImageJ.

Rank Filters

Denoising images is not restricted to linear filters, another family of filters is powerful for such an image enhancement: the Rank Filters.

Noise Distributions

  

Noise present in  a scientific image can be described depending of its distribution. Thus, it is important to figure out how to define the type of noise in order to elaborate a strategy to denoise the images...

Segmentation: TOC

Section dedicated to Segmentation and ImageJ

Thresholding - Segmentation by regions

The simplest method for partitioning an image into two regions: (i) the objects of interest and (ii) the background is the Thresholding.

Dataset for Machine Learning

Dataset for experimenting machine learning methods.

Linear Filters

In Image Processing, one of the most important application of the convolution is the filter. Here is a small introduction...

Convolution

In Image Processing, one of the most important operation is the convolution because it is used everywhere for designing filters, mathematical morphology operators, analyzing particles, etc. Here is a small introduction...

Analysis of an Antibiogram

In this case study based on the article entitled Single bacterial super-clone behind world epidemic of drug-resistant E. coli of M. McCarthy [Link], there is an image of an Antibiotic Susceptibility Testing and the question is: "Is it possible to automatically detect the wafers and the inhibitory areas?"...

ML Toolkit

I developed a tiny Machine Learning (ML) toolkit written in JavaScript containing helper functions...