Browse Source

Add README.md

Andrej Studen 4 years ago
parent
commit
5a929f9cc8
1 changed files with 18 additions and 0 deletions
  1. 18 0
      README.md

+ 18 - 0
README.md

@@ -0,0 +1,18 @@
+### Immunotherapy related adverse effects toolbox
+
+Manage images and data related to irAE project.
+
+# Dependencies 
+To access LabKey, the [python API][labkeyInterface] was used.
+Anonymization and NIfTI conversion are based on phenomenal [nibabel][] tools. 
+Data storage is provided by [Orthanc][] with associated [interface][orthancInterface].
+
+#Usage
+
+Anonymization must be run as a `tomcat8` user for access to data files. Check setup 
+in the `anonymization.py` and run it with `runPython.sh anonymization.py`. 
+
+
+[nibabel]: https://nipy.org/nibabel/gettingstarted.html
+[labkeyInterface]: http://iscigt.powertheword.com/andrej.studen/labkeyInterface
+[orthancInterface] http://iscigt.powertheword.com/andrej.studen/orthancInterface