Initial commit

.gitignore

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+# History files
+.Rhistory
+.Rapp.history
+
+# Session Data files
+.RData
+
+# User-specific files
+.Ruserdata
+
+# Example code in package build process
+*-Ex.R
+
+# Output files from R CMD build
+/*.tar.gz
+
+# Output files from R CMD check
+/*.Rcheck/
+
+# RStudio files
+.Rproj.user/
+*.Rproj
+
+# produced vignettes
+vignettes/*.html
+vignettes/*.pdf
+
+# OAuth2 token, see https://github.com/hadley/httr/releases/tag/v0.3
+.httr-oauth
+
+# knitr and R markdown default cache directories
+*_cache/
+/cache/
+
+# Temporary files created by R markdown
+*.utf8.md
+*.knit.md
+
+# R Environment Variables
+.Renviron
+
+# pkgdown site
+docs/
+
+# translation temp files
+po/*~
+
+# jupyter checkpoints
+*/.ipynb_checkpoints/*
+
+# other temp files
+*.~lock*
+.idea/
+.DS_Store
+*__pycache__*

README.md

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+# RPath
+<p align="center">
+  <img src="data/img/logo.jpg" alt="logo" width="200"/>
+</p>
+
+Source code and data presented in "Causal reasoning over knowledge graphs leveraging multimodal transcriptomic signatures for drug discovery".
+
+## Structure
+
+- `data`: contains the four transcriptomic datasets used in the paper as well as the two KGs. Furthermore, it contains the drug-disease pairs studied in clinical trials which are used as positive pairs for the validation of the RPath algorithm.
+- `src`: contains the code to run the algorithm and its validation as well as to preprocess the datasets. It is divided between `data_preprocess` and `notebooks`. Notebooks contains the core of the analysis and validation.