documentation updated

README.rst

@@ -40,6 +40,11 @@ Key Features
 - Easy-to-use wrappers for the most-commonly used software, e.g. HHblits, Jackhmmer, CCMpred, PSICOV, ...
 - Many convenience functions for prediction-structure matching, determination of True Positive contacts, calculation of MSA and contact prediction statistics, etc.
 
+News
+~~~~
+
+ConKit was presented at the CCP4 Study Weekend 2017. To view the presentation slides, `click here <https://fsimkovic.github.io/Presentations/ccp4_sw2017.html#/>`_.
+
 Contributing
 ~~~~~~~~~~~~
 There are two ways by which you can contribute to ConKit:

docs/examples/pipeline.rst

@@ -141,9 +141,8 @@ Our final contact prediction matrix is now stored in the file with the name ``co
 
 .. code-block:: python
 
-   >>> f_in = open(matrix_fname, 'r')
-   >>> f_out = open(casprr_fname, 'w')
-   >>> io.convert(f_in, 'ccmpred', f_out, 'casprr')
+   >>> with open(matrix_fname, 'r') as f_in, open(casprr_fname, 'w') as f_out:
+   ...    io.convert(f_in, 'ccmpred', f_out, 'casprr')
 
 This will produce your final contact prediction in Casp RR format in the file ``conkit_example.rr``
 

docs/scripts.rst

@@ -10,6 +10,7 @@ The following scripts are currently shipped with ConKit:
 
 - :obj:`conkit.convert` - script to convert file formats
 - :obj:`conkit.msatool` - script to analyse a Multiple Sequence Alignment 
+- :obj:`conkit.plot_map` - script to plot a contact map
 - :obj:`conkit.precision` - script to calculate the contact prediction precision value
 - :obj:`conkit.predict` - simple contact prediction pipeline using HHblits, HHfilter and CCMpred