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Papers / Conferences
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Journal Papers using pycroscopy
-------------------------------

.. note::
   Notebooks for the papers below are made available through NBViewer. We have been made aware that the **Download** button may not work for certain browsers like Chrome and Safari.
   *We are working on simplifying the download of the notebooks.*

   Current workarounds:

   - Try right clicking on the download icon and selecting ``Download Linked File``
   - Try a different browser like internet explorer

Electron Microscopy
~~~~~~~~~~~~~~~~~~~

 #. `Big Data Analytics for Scanning Transmission Electron Microscopy Ptychography <https://www.nature.com/articles/srep26348>`_ by *S. Jesse* et al., **Scientific Reports** (2015)

    * `Jupyter notebook <http://nbviewer.jupyter.org/github/pycroscopy/papers/blob/master/Notebooks/EM/STEM/4D_STEM.ipynb>`_
    * `Completed notebook <http://nbviewer.jupyter.org/github/pycroscopy/papers/blob/master/HTML/EM/STEM/4D_STEM.html>`_
    * `Raw, intermediate, and final data <https://www.osti.gov/dataexplorer/biblio/1463599>`_
 #. `Feature extraction via similarity search: application to atom finding and denoising in electron and scanning probe microscopy imaging <https://ascimaging.springeropen.com/articles/10.1186/s40679-018-0052-y>`_ by *S. Somnath* et al.; **Advanced Structural and Chemical Imaging** (2018);

    * `Jupyter notebook <http://nbviewer.jupyter.org/github/pycroscopy/papers/blob/master/Notebooks/EM/STEM/Image_Cleaning_Atom_Finding.ipynb>`_
    * `Completed notebook <http://nbviewer.jupyter.org/github/pycroscopy/papers/blob/master/HTML/EM/STEM/Image_Cleaning_Atom_Finding.html>`_
    * `Raw, intermediate, and final data <https://www.osti.gov/dataexplorer/biblio/1463696>`_

Scanning Probe Microscopy 
~~~~~~~~~~~~~~~~~~~~~~~~~

 #. `Rapid mapping of polarization switching through complete information acquisition <http://www.nature.com/articles/ncomms13290>`_ by *S. Somnath* et al., **Nature Communications** (2016)

    * `Jupyter notebook <http://nbviewer.jupyter.org/github/pycroscopy/papers/blob/master/Notebooks/SPM/AFM/G_mode_filtering.ipynb>`_
    * `Completed notebook <http://nbviewer.jupyter.org/github/pycroscopy/papers/blob/master/HTML/SPM/AFM/G_mode_filtering.html>`_
    * `Raw, intermediate, and final data <https://www.osti.gov/dataexplorer/biblio/1464457>`_
 #. `Full information acquisition in piezoresponse force microscopy <https://aip.scitation.org/doi/abs/10.1063/1.4938482>`_

    * `Raw data <https://www.osti.gov/dataexplorer/biblio/1464456>`_
 #. `Improving superconductivity in BaFe2As2-based crystals by cobalt clustering and electronic uniformity <http://www.nature.com/articles/s41598-017-00984-1>`_ by *L. Li* et al., **Scientific Reports** (2017)

    * `Jupyter notebook <http://nbviewer.jupyter.org/github/pycroscopy/papers/blob/master/Notebooks/SPM/STM/STS_LDOS.ipynb>`_
 #. `Direct Imaging of the Relaxation of Individual Ferroelectric Interfaces in a Tensile-Strained Film <http://onlinelibrary.wiley.com/doi/10.1002/aelm.201600508/full>`_ by *L. Li* et al.; **Advanced Electronic Materials** (2017)

    * `Jupyter notebook <http://nbviewer.jupyter.org/github/pycroscopy/pycroscopy/blob/master/jupyter_notebooks/BE_Processing.ipynb>`_
    * `Completed notebook <http://nbviewer.jupyter.org/github/pycroscopy/papers/blob/master/HTML/SPM/AFM/BE_Processing.html>`_
 #. `Decoding apparent ferroelectricity in perovskite nanofibers <http://pubs.acs.org/doi/pdf/10.1021/acsami.7b14257>`_ by *R. Ganeshkumar* et al., **ACS Applied Materials & Interfaces** (2017).
 #. `Ultrafast Current Imaging via Bayesian Inference <https://www.nature.com/articles/s41467-017-02455-7>`_ by *S. Somnath* et al., **Nature Communications** (2018)

    * `Jupyter notebook <http://nbviewer.jupyter.org/github/pycroscopy/papers/blob/master/Notebooks/SPM/AFM/gIV_sIV_Nat_Comm_2017.ipynb>`_
    * `Completed notebook <http://nbviewer.jupyter.org/github/pycroscopy/papers/blob/master/HTML/SPM/AFM/gIV_sIV_Nat_Comm_2017.html>`_
    * `Raw, intermediate, and final data <https://www.osti.gov/biblio/1410993-ultrafast-current-imaging-bayesian-inversion>`_
 #. `Reconstructing phase diagrams from local measurements via Gaussian processes: mapping the temperature-composition space to confidence <https://www.nature.com/articles/s41524-018-0078-7>`_ by *D. K. Pradhan* et al., **NPJ Computational Materials** (2018)

**Many more coming soon....**

.. note::
   Please `get in touch <./contact.html>`_ with us if you would like to add your papers that used pycroscopy / pyUSID

.. note::
   If you used pycroscopy for your research, we would appreciate it if you could `reference pycroscopy <https://pycroscopy.github.io/pycroscopy/faq.html#how-can-i-reference-pycroscopy>`_.

Workshops on pycroscopy
-----------------------
* Aug 13 2018 - Full day `workshop <https://github.com/pycroscopy/pyUSID_Tutorial/blob/master/CNMS_UM_Workshop_schedule.md>`_ on `Imaging and Spectral Data Analysis in Python <https://cnmsusermeeting.ornl.gov/files/2018/03/Pycroscopy_WT_081318.pdf>`_ at the 2018 CNMS User Meeting, Oak Ridge National Laboratory.
* Aug 5th 2018 - `Tutorial <https://www.microscopy.org/MandM/2018/program/short_courses.cfm>`_ at Microscopy and Microanalysis Conference 2018.
* Nov 27 2017 - `Tutorial on Machine Learning for Image and Hyperspectral Data <https://mrsfall.zerista.com/event/member/434841>`_
* Aug 9 2017 @ 8:30 - 10:00 AM - Microscopy and Microanalysis conference; X40 - Tutorial session on `Large Scale Data Acquisition and Analysis for Materials Imaging and Spectroscopy <http://microscopy.org/MandM/2017/program/tutorials.cfm>`_ by S. Jesse and S. V. Kalinin

pycroscopy at International conferences
---------------------------------------
2018
~~~~
* Nov 27 2018 - `poster at MRS Fall meeting at Boston <https://mrsfall2018.zerista.com/event/member/533555>`_
* Oct 25 2018 poster - NS-ThP19 - `American Vacuum Society 2018 meeting <https://avs.org/AVS/files/81/81247cc8-682a-48a4-b006-a74bf82dfab9.pdf>`_
* May 16-18 2018 - Poster at `ORNL Software Expo <https://software.ornl.gov/expo/program>`_
* May 18 2018 - **Invited** `talk <https://github.com/pycroscopy/pycroscopy/blob/master/docs/USID_pyUSID_pycroscopy.pdf>`_ at `ImageXD <http://www.imagexd.org/programs/imagexd2018/>`_
* Feb 28 2018 - Webinar on `Jupyter for Supporting a Materials Imaging User Facility (and beyond) <https://www.exascaleproject.org/event/jupyter/>`_. see this `Youtube video <https://www.youtube.com/watch?v=aKah_O5OZdE&t=31m53s>`_
2017
~~~~
* Nov 29 2017 @ 8-10 PM - `Poster <https://mrsfall.zerista.com/event/member/432978>`_ at the Materials Research Society Fall 2017 Meeting
* Oct 31 2017 @ 6:30 PM - American Vacuum Society conference;  Session: SP-TuP1; `poster 1641 <http://www2.avs.org/symposium2017/Papers/Paper_SP-TuP1.html>`_
* Aug 8 2017 @ 10:45 AM - Microscopy and Microanalysis conference - `poster <https://www.cambridge.org/core/services/aop-cambridge-core/content/view/C6F6D85EF7367C058B66B4B709AD61ED/S1431927617001805a.pdf/pycroscopy_an_open_source_approach_to_microscopy_and_microanalysis_in_the_age_of_big_data_and_open_science.pdf>`_.
* Apr 2017 - Lecture on `atom finding <https://physics.appstate.edu/events/aberration-corrected-stem-teaching-machines-and-atomic-forge>`_
2016
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* Dec 2016 - Poster + `abstract <https://mrsspring.zerista.com/poster/member/85350>`_ at the 2017 Spring Materials Research Society (MRS) conference