quantan 0.0.19

Quantitative histological analyser

# QuantAn Quantitative Analyser

[Sample data](http://147.228.240.61/queetech/sample-data/biodur_sample.zip)

# Install

## Windows

• Use [installer](http://147.228.240.61/queetech/install/setup_quantan.exe) (experimental)

or

• Install [Anaconda for python 2.7](https://www.continuum.io/downloads)

• Install QuantAn

  conda install -c mjirik -c SimpleITK quantan

## Linux (Ubuntu 14.04)

• Install prerequisites

  sudo apt-get install cmake libinsighttoolkit3-dev libpng12-dev libgdcm2-dev git wget wget https://repo.continuum.io/miniconda/Miniconda-latest-Linux-x86_64.sh source Miniconda-latest-Linux-x86_64.sh conda install numpy scipy pip imtools io3d sed3

• Install [skelet3d package](https://github.com/mjirik/skelet3d)

  git clone https://github.com/mjirik/skelet3d.git cd skelet3d mkdir build cd build cmake .. make sudo make install pip install .

• Install Quantan

  conda install -c mjirik -c SimpleITK quantan

# Run

Run QuantAn with:

python -m quantan





# Sample outputs

• [segmentation (DICOM)](http://147.228.240.61/queetech/www/segmentation.dcm)

• [skeleton (DICOM)](http://147.228.240.61/queetech/www/skeleton.dcm)

• [labeled skeleton (DICOM)](http://147.228.240.61/queetech/www/labeled_skeleton.dcm)