Skip to main content

GUI to visualize and process variant data

Project description


cutevariant is a light standalone viewer of genetic variation written in Python for Qt. It allows you to view and filter VCF and other format files.

Cutevariant example


pip install cutevariant # install
cutevariant             # run

Installation on Windows

Pyside2 is not currently (2019 May) functional on Cygwin, so Cutevariant will not work on Cygwin.

  • Install Python3.6+
  • Install like the previous chapter said.
  • Add the path of python scripts executables to your PATH variable; Something like:


Two executables are generated in this directory:

- cutevariant_win_dbg.exe: Open a console in background to see debugging messages.

Note: Qt libs seems to have a very high loglevel and such a verbosity could make the program unusable.

- cutevariant.exe: Standard executable.

Developement in progress

Complete rewriting from Cpp to Python.

To get tests running

git clone
cd cutevariant
virtualenv -p /usr/bin/python3 venv
source ven/bin/activate
make install_deps # install
make run     # start application
make test    # start tests

Development & release cycle

Use zest.releaser to handle the version and distribution through pypi.

pip install zest.releaser[recommended]

To yield a new release, use:


Development on Windows (good luck)

  • Install Python3.6+

  • Install git

  • Install make (optional)

    pip install wheel git clone git fetch git checkout dev # or devel make install # or pip install --user -e .[dev]

Executable files are located here:

  • Executable path: C:\Users<username>\AppData\Roaming\Python\Python37\Scripts\cutevariant.exe

Build standalone program/archive/blob[add synonyms here] on Windows using cx_freeze

Strongly discouraged: You will generate an archive of 350Mo just for a program of less than 900Ko (including 550Ko of fonts and icons).

Install cx_freeze:

pip install cx_freeze

Build a blob:

make build_windows_blob

Your blob is in ./build/ directory.

Project details

Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Files for cutevariant, version 0.1.14
Filename, size File type Python version Upload date Hashes
Filename, size cutevariant-0.1.14-py3-none-any.whl (384.1 kB) File type Wheel Python version py3 Upload date Hashes View
Filename, size cutevariant-0.1.14.tar.gz (365.1 kB) File type Source Python version None Upload date Hashes View

Supported by

Pingdom Pingdom Monitoring Google Google Object Storage and Download Analytics Sentry Sentry Error logging AWS AWS Cloud computing DataDog DataDog Monitoring Fastly Fastly CDN DigiCert DigiCert EV certificate StatusPage StatusPage Status page