Improve Input Files section, minor fixes

README.md

 # Integrative Network Fusion (INF)
 ![INF pipeline ](figs/INF_pipeline.jpeg)
 
-Repository attached to the article "Integrative Network Fusion: a multi-omicsapproach in molecular profiling".
+Repository attached to the article "Integrative Network Fusion: a multi-omics approach in molecular profiling".
 
 **Authors**: Marco Cherici*, Nicole Bussola*, Alessia Marcolini*, Margherita Francescatto, Alessandro Zandonà, Lucia Trastulla, Claudio Agostinelli, Giuseppe Jurman, Cesare Furlanello.
 
@@ -49,14 +49,12 @@ All the data used to perform the experiments has been published on [Figshare](dx
 
 ## Usage
 
-**Input files**
+#### Input files
 
-* omics layer 1 data: samples x features, tab-separated, with row & column names
-* omics layer 2 data: same as above (**samples must be in the same order as the first file**)
-* omics layers 1+2 data: the juxtaposition of the above two files
-* labels file: one column, just the labels, no header (**same order as the data files**)
+* Omics layer files: samples x features, tab-separated, with row & column names
+* Labels file: one column, just the labels, no header (**same order as the data files**)
 
-**Example run**
+#### Example run
 
 The INF pipeline is implemented with a [Snakefile](https://snakemake.readthedocs.io/en/stable/index.html).
 
@@ -71,7 +69,8 @@ All the {variables} can be specified either in a config.yaml file or on the comm
 Example:
 
 ```bash
-snakemake --config datafolder=data outfolder=results dataset=tcga_brca target=ER layer1=gene layer2=cnv layer3=prot model=randomForest random=false split_id=0 -p 
+snakemake --config datafolder=data outfolder=results dataset=tcga_brca target=ER \
+    layer1=gene layer2=cnv layer3=prot model=randomForest random=false split_id=0 -p 
 ```
 
 This example showed an example pipeline using three omics layers from BRCA-ER dataset. You can use an arbitrary number of omics layers by adding or removing `layer` arguments accordingly.
@@ -88,4 +87,4 @@ The pipeline can be "dry-run" using the `-n` flag:
 snakemake --cores 12 -n
 ```
 
-A bash script (`runner.sh`) is provided for convenience, in order to run the pipeline for each split, to compute Borda of Bordas and to average metrics for all the splits.
+*A bash script (`runner.sh`) is provided for convenience, in order to run the pipeline for each split, to compute Borda of Bordas and to average metrics for all the splits.*