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PKPDAI · Aug 30, 2020 · 54c5a33 · 54c5a33
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diff --git a/.idea/.gitignore b/.idea/.gitignore
diff --git a/.idea/PKDocClassifier.iml b/.idea/PKDocClassifier.iml
diff --git a/.idea/inspectionProfiles/Project_Default.xml b/.idea/inspectionProfiles/Project_Default.xml
diff --git a/.idea/inspectionProfiles/profiles_settings.xml b/.idea/inspectionProfiles/profiles_settings.xml
diff --git a/.idea/misc.xml b/.idea/misc.xml
diff --git a/.idea/modules.xml b/.idea/modules.xml
diff --git a/LICENSE b/LICENSE
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+
+MIT License
+
+Copyright (c) 2020 Ferran Gonzalez Hernandez
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.
diff --git a/README.md b/README.md
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+# PKDocClassifier
+
+This repository provides the code for developing a machine learning pipeline that classifies scientific publications from PubMed depending on whether they report new pharmacokinetic (PK) parameters from __in vivo__ studies.
+
+In the analyses section the different pipelines..
+
+The final pipeline retrieved more than 120K PK publications and runs weekly updates. All the retrieved data has been arranged at https://stage-app.pkpdai.com/. 
+
+# Reproducing our results
+
+## 1. Installation 
+
+
+## 2. Data download
+
+
+## 3. Run
diff --git a/environment.yml b/environment.yml
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+# This file may be used to create an environment using:
+# $ conda env create --name <env> --file <this file>
+# platform: linux-64
+name: fgh95
+
+channels:
+  - conda-forge
+
+dependencies:
+  - python=3.7
+
+  - pip:
+    - -r file:requirements.txt
diff --git a/requirements.txt b/requirements.txt
diff --git a/setup.py b/setup.py
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+from setuptools import setup, find_packages
+
+with open('requirements.txt') as f:
+    requirements = f.read().splitlines()
+
+
+setup(
+    name="pk_classifier",
+    version="0.1.0",
+    packages=find_packages(),
+    install_requires=requirements
+)