Community Detection Enrichr Gene to Term Mapper

This repository creates a CDAPS compatible functional enrichment Docker image using Enrichr packaged from https://pypi.org/project/gseapy/

Dependencies

• Docker
• make (to build)
• Python (to build)

Direct invocation

Version 0.4.0 can be directly pulled from Dockerhub with this command:

docker pull coleslawndex/cdenrichrgenestoterm:0.4.0

Building

git clone https://github.com/idekerlab/cdenrichrgenestoterm
cd cdenrichrgenestoterm
make dockerbuild

Run make command with no arguments to see other build/deploy options including creation of Docker image

make

Output:

clean                remove all build, test, coverage and Python artifacts
clean-build          remove build artifacts
clean-pyc            remove Python file artifacts
clean-test           remove test and coverage artifacts
lint                 check style with flake8
test                 run tests quickly with the default Python
test-all             run tests on every Python version with tox
coverage             check code coverage quickly with the default Python
docs                 generate Sphinx HTML documentation, including API docs
servedocs            compile the docs watching for changes
testrelease          package and upload a TEST release
release              package and upload a release
dist                 builds source and wheel package
install              install the package to the active Python's site-packages
dockerbuild          build docker image and store in local repository
dockerpush           push image to dockerhub

Usage

docker run -v coleslawndex/cdenrichrgenestoterm:0.4.0 -h

Credits

This package was created with Cookiecutter and the audreyr/cookiecutter-pypackage project template.