blik

blik

Python tool for visualising and interacting with cryo-ET and subtomogram averaging data.


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    blik is a tool for visualising and interacting with cryo-ET and subtomogram averaging data. It leverages the fast, multi-dimensional napari viewer and the scientific python stack.

    DISCLAIMER: this package is in development phase. Expect frequent bugs and crashes. Please, report them on the issue tracker and ask if anything is unclear!

    Installation

    You can either install blik through the napari plugin system, through pip, or get both napari and blik directly with:

    pip install blik[all]

    Basic Usage

    From the command line:

    napari /path/to.star /path/to/mrc/files/* [-w blik]

    The optional -w blik addition will open the main blik widget and set up a few things (such as the scale bar) on the napari viewer.

    blik is just napari. Particles and images are exposed as simple napari layers, which can be analysed and manipulated with simple python, and most importantly other napari plugins.

    Version:

    • 0.3.1

    Release date:

    • 17 May 2022

    First released:

    • 15 June 2021

    License:

    • GPL-3.0

    Supported data:

    • Information not submitted

    Plugin type:

    GitHub activity:

    • Stars: 13
    • Forks: 4
    • Issues + PRs: 4

    Python versions supported:

    Operating system:

    Requirements:

    • numpy
    • dask
    • pandas
    • scipy
    • naaf (>=0.2.2)
    • magicgui (>=0.4.0)

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