Complete installation instructions

README.md

@@ -98,6 +98,8 @@ You have different possibilities to install `PanACoTa`.
 
 ### <a name="pypi"></a> From pip
 
+[![PyPI version](https://badge.fury.io/py/PanACoTA.svg)](https://badge.fury.io/py/PanACoTA)
+
 A very simple way to install the last stable version. This will install files in your python site-packages folder.
 
     pip install panacota
@@ -148,6 +150,10 @@ It will replace your file panacota.img by a new one corresponding to the latest
 
 ### <a name="conda"></a> From conda
 
+[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/ppanggolin/README.html)
+
+[![Anaconda-Server Badge](https://anaconda.org/bioconda/panacota/badges/version.svg)](https://anaconda.org/bioconda/panacota)
+
 Be careful while using conda, especially if you are not familiar with it. We advise to install PanACoTA in a dedicated conda environment, in order to avoid unwanted interactions with other softwares (like needed versions of dependencies automatically installed by conda). To install the package, use `conda install -c bioconda panacota`. But, as described in [conda documentation](https://docs.conda.io/projects/conda/en/latest/user-guide/tasks/manage-environments.html#id6), we advise to install it with:
 
     # Create an environment: This creates the 'myenv' environment in '/envs/'. No packages will be installed in this environment.

doc/source/starting.rst

@@ -104,15 +104,10 @@ To upload to new version, go back to your repository:
     git pull
     ./make upgrade
 
-From singularity image
-**********************
-
 .. _singularity:
 
-|singularity|
-
-.. |singularity| image:: https://www.singularity-hub.org/static/img/hosted-singularity--hub-%23e32929.svg
-   :target: https://singularity-hub.org/collections/4724
+From singularity image
+**********************
 
 Very useful if you do not have permission rights on the computer, such as, for example, on a cluster. The other advantage is that you do not need to install any dependence (except singularity itself of course). Singularity image includes all of them. You just have to download 1 file, and nothing will be installed anywhere on your computer.
 
@@ -139,9 +134,8 @@ From conda
 
 Be careful while using conda, especially if you are not familiar with it. We advise to install PanACoTA in a dedicated conda environment, in order to avoid unwanted interactions with other softwares (like needed versions of dependencies automatically installed by conda). To install the package, use ``conda install -c bioconda panacota``. But, as described in `conda documentation <https://docs.conda.io/projects/conda/en/latest/user-guide/tasks/manage-environments.html#id6>`_, we advise to install it with:
 
-.... code-block:: bash
+.. code-block:: bash
 
-    source
     # Create an environment: This creates the 'myenv' environment in '/envs/'. No packages will be installed in this environment.
     conda create --name myenv
     # Activate the environment
@@ -156,13 +150,13 @@ Be careful while using conda, especially if you are not familiar with it. We adv
 From zip version
 ****************
 
-For people wanting to download source code of a specific version, we provide releases. You can download last one here:
-
 |zip|
 
 .. |zip| image:: https://img.shields.io/github/release/gem-pasteur/PanACoTA.svg
     :target: https://github.com/gem-pasteur/PanACoTA/releases
 
+For people wanting to download source code of a specific version, we provide releases. You can download last one here:
+
 
 .. _installing: