Reactome2py

Reactome2py

CI | Branch | Build Status ---|---------|------------- Travis | master |

Python client for Reactome content and analysis services API calls.

Installation

• PyPI install using pip

  (sudo) pip install reactome2py 
  

• from source

  git clone repo
  cd reactome2py
  python setup.py install 
  

• Dockerfile

  (sudo) docker build -t <tag-name>:latest .
  (sudo) docker run -it --rm <tag-name>:latest
  

reactome2py Jupyter notebook use-case examples

demo folder holds jupyter notebooks to show use-cases

Try it on the fly with google coolab - NOTE: click on folder/file icon to find results generated via jupyter notebook.

• microbiologist-clinician

• cyclic immunofluorescence histology image pathway analysis

API Documentation and json structures (Model section)

• Pathway Analysis Service: https://reactome.org/AnalysisService/#/
• Content Service: https://reactome.org/ContentService/#/

Reactome EBI Training Course

https://www.ebi.ac.uk/training-beta/online/courses/reactome-tools-for-analysing-biological-pathways/

Reactome Pathway Browser Tour

This video is useful in understanding how to fully use and interpret Reactome pathway browser features.
https://www.youtube.com/watch?v=-skixrvI4nU

In depth user guides are available at: https://reactome.org/userguide