fix singularity url

README.md

@@ -6,7 +6,10 @@ Counter RnAseq Window
 [![docs](https://img.shields.io/badge/doc-master-blue.svg)](http://bneron.pages.pasteur.fr/craw/)
 [![license](https://img.shields.io/badge/license-GPLv3-blue.svg)](https://opensource.org/licenses/GPL-3.0)
 [![pypi](https://img.shields.io/badge/pypy-releases-blue.svg)](https://pypi.python.org/pypi/craw)
+[![https://www.singularity-hub.org/static/img/hosted-singularity--hub-%23e32929.svg](https://www.singularity-hub.org/static/img/hosted-singularity--hub-%23e32929.svg)](https://singularity-hub.org/collections/2703)
+[![hosted](https://img.shields.io/badge/hosted-docker--hub-orange.svg)](https://cloud.docker.com/u/c3bi/repository/docker/c3bi/craw/general)
 
+**C**ounter **R**N**A** seq **W**indow (CRAW) compute and visualize the coverage of RNA seq experiment.
 
 There are 3 ways to use craw:
 * by install the standalone python scripts
@@ -82,29 +85,41 @@ Using Docker Image
 ==================
 
 Docker images are available. The two scripts are accessible through the sub-command `coverage` or `htmp`.
-For instance to use the latest version of craw_htmp::
+For instance to use the latest version of craw_htmp
 
     docker pull c3bi/craw
     docker run -v$PWD:/root -it c3bi/craw coverage --bam foo.bam --annot foo.annot --ref-col 'Position' --before 3 --after 5 --out foo.cov
     docker run -v$PWD:/root -it c3bi/craw htmp --size raw --out foo.png  foo.cov
 
-.. note::
-    In docker the interactive htmp output is not available.
-    So you must specify the --out option
+>**note:**
+>
+> In docker the interactive htmp output is not available.  
+> So you must specify the --out option  
 
 
 Using Singularity Image
 =======================
 
 Singularity images are available. The two scripts are accessible through the sub-command `coverage` or `htmp`.
-For instance to use the latest version of craw_htmp::
+For instance to use the latest version of craw_htmp
+    
+Pull the image locally
+    
+    singularity pull --name craw shub://C3BI-pasteur-fr/craw
+    
+Then run it
 
-    singularity pull --name craw shub://c3bi/craw
     ./craw coverage --bam foo.bam --annot foo.annot --ref-col 'Position' --before 3 --after 5 --out foo.cov
     ./craw htmp --size raw --out foo.png  foo.cov
-
-.. note::
-    instead of Docker images, in Singularity images the interactive output is available.
+ 
+or
+    
+    singularity run craw htmp --size raw --out foo.png  foo.cov
+    
+>**note:**  
+> Instead of Docker images, in Singularity images the interactive output is available.
+    
+    
 Quickstart
 ==========