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https://github.com/broadinstitute/genemasker

https://github.com/broadinstitute/genemasker

Science Score: 26.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (7.7%) to scientific vocabulary
Last synced: 10 months ago · JSON representation

Repository

Basic Info
  • Host: GitHub
  • Owner: broadinstitute
  • License: mit
  • Language: Python
  • Default Branch: main
  • Size: 124 KB
Statistics
  • Stars: 0
  • Watchers: 2
  • Forks: 0
  • Open Issues: 0
  • Releases: 0
Created over 1 year ago · Last pushed 12 months ago
Metadata Files
Readme License

README.rst 

genemasker
**********

This application produces masked group/gene variant inclusion files for rare variant analysis.

Installation
************

This application has been tested using the following version of Python and required modules.
   - python=3.9.21
   - numpy=2.0.2
   - pandas=2.2.3
   - scikit-learn=1.6.1
   - scipy=1.13.1
   - psutil=6.1.1
   - dask=2024.8.0

It can be installed in a conda environment via the provided yml file as below.

.. code-block:: bash

   conda env create -f env/environment.yml
   source activate genemasker

With your environment activated, you are ready to install genemasker.

.. code-block:: bash

   python setup.py install

Another option is to run genemasker via Docker (see the included Dockerfile).

Getting Started
***************

.. code-block:: bash

   source activate genemasker

Verify that genemasker is functional using the following command to display help.

.. code-block:: bash

   genemasker --help

Owner

  • Name: Broad Institute
  • Login: broadinstitute
  • Kind: organization
  • Location: Cambridge, MA

Broad Institute of MIT and Harvard

GitHub Events

Total
  • Push event: 3
  • Public event: 1
Last Year
  • Push event: 3
  • Public event: 1

Dependencies

env/environment.yml pypi
setup.py pypi
  • dask *
  • numpy *
  • pandas *
  • psutil *
  • scikit-learn *
  • scipy *