References
==========

The initial code for this package was first used in [Wilson2021]_. Please cite
it if you use this package in published work.

.. [Wilson2021] Wilson, K. A.; Wang, L.; Lin, Y. C.; O’Mara, M. L.
    Investigating the Lipid Fingerprint of SLC6 Neurotransmitter Transporters:
    A Comparison of DDAT, HDAT, HSERT, and GlyT2. BBA Advances 2021, 1, 100010.
    doi: `10.1016/j.bbadva.2021.100010`_

.. _`10.1016/j.bbadva.2021.100010`: https://doi.org/10.1016/j.bbadva.2021.100010


The DEI algorithm with a hard cutoff was first used in [Corradi2018]_.

.. [Corradi2018] Corradi, V., Mendez-Villuendas, E., Ingólfsson, H. I., 
   Gu, R.-X., Siuda, I., Melo, M. N., Moussatova, A., 
   DeGagné, L. J., Sejdiu, B. I., Singh, G., Wassenaar, T. A., 
   Delgado Magnero, K., Marrink, S. J., & Tieleman, D. P. 
   Lipid–Protein Interactions Are Unique Fingerprints for Membrane Proteins. 
   ACS Cent Sci 4, 709–717 (2018). doi:`10.1021/acscentsci.8b00143`_

.. _`10.1021/acscentsci.8b00143`: https://dx.doi.org/10.1021%2Facscentsci.8b00143

Lipyds is built on MDAnalysis_. Please cite [Michaud-Agrawal2011]_ and
[Gowers2016]_ if you use this package in published work.

.. [Michaud-Agrawal2011] N. Michaud-Agrawal, E. J. Denning, T. B. Woolf,
   and O. Beckstein. MDAnalysis: A Toolkit for the Analysis of Molecular Dynamics
   Simulations. *J. Comput. Chem.* **32** (2011),
   2319–2327. doi:`10.1002/jcc.21787`_

.. [Gowers2016] R. J. Gowers, M. Linke, J. Barnoud, T. J. E. Reddy, M. N.
   Melo, S. L. Seyler, D. L. Dotson, J. Domanski, S. Buchoux, I. M. Kenney,
   and O. Beckstein. `MDAnalysis: A Python package for the rapid analysis of
   molecular dynamics simulations`_. In S. Benthall and S. Rostrup, editors,
   *Proceedings of the 15th Python in Science Conference*, pages 98-105,
   Austin, TX, 2016. SciPy. doi:`10.25080/Majora-629e541a-00e`_

.. _MDAnalysis: https://www.mdanalysis.org/

.. _`10.1002/jcc.21787`: http://dx.doi.org/10.1002/jcc.21787
.. _`10.25080/Majora-629e541a-00e`:
   https://doi.org/10.25080/Majora-629e541a-00e
.. _`MDAnalysis: A Python package for the rapid analysis of molecular
   dynamics simulations`:
   http://conference.scipy.org/proceedings/scipy2016/oliver_beckstein.html