similarity-and-connectivity.md

@@ -15,6 +15,18 @@ In some datasets, this procedure may be of considerable complexity and we need t
 
 Another important matter here is the distance. The CC works with *common* distance metrics, such as the `cosine` or `euclidean` distances. Sometimes, connectivity may require other types of metrics (e.g. GSEA-like, overlap, etc.). We might consider learning siamese networks that transform original distances to the more standard ones. This is an unexplored avenue, though.
 
+## Standard input files
+
+|Type|Format|Description||
+|Feature sets||GMT|
+|Key-feature pairs||TSV|
+|Key profiles||TSV|
+|InChIKeys|TSV|
+
+## Documentation
+
+Every pre-processing script needs to have a `README` file.
+
 ## Chemistry