DOC add references for pycortex and pymoten

Author: TomDLT

README.rst

@@ -85,17 +85,25 @@ The package ``voxelwise_tutorials`` has the following dependencies:
    :target: https://opensource.org/licenses/BSD-3-Clause
 
 
-Cite this tutorial
-==================
+Cite as
+=======
 
-If you use this tutorial and helper package in your work, please cite our
-(future) publication:
+If you use one of our packages in your work (``voxelwise_tutorials`` [1]_,
+``himalaya`` [2]_, ``pycortex`` [3]_, or ``pymoten`` [4]_), please cite the
+corresponding publications:
 
 .. [1] Deniz, F., Visconti di Oleggio Castello, M., Dupré La Tour, T., &
   Gallant, J. L. (2022). Voxelwise encoding models in functional MRI. *In
   preparation*.
 
-If you use ``himalaya``, please cite our (future) publication:
-
 .. [2] Dupré La Tour, T., Eickenberg, M., & Gallant, J. L. (2022).
 	Variance decomposition with banded ridge regression. *In preparation*.
+
+.. [3] Gao, J. S., Huth, A. G., Lescroart, M. D., & Gallant, J. L. (2015).
+    Pycortex: an interactive surface visualizer for fMRI. Frontiers in
+    neuroinformatics, 23.
+
+.. [4] Nunez-Elizalde, A.O., Deniz, F., Dupré la Tour, T., Visconti di Oleggio
+   Castello, M., and Gallant, J.L. (2021). pymoten: scientific python package
+   for computing motion energy features from video. Zenodo.
+   https://doi.org/10.5281/zenodo.6349625

doc/index.rst

@@ -51,16 +51,14 @@ Navigation
 
    voxelwise_modeling
 
-Cite this tutorial
-------------------
+Cite as
+-------
 
-To support this tutorial, please cite our (future) publication:
+If you use one of our packages in your work (``voxelwise_tutorials``
+:ref:`[13]<den2022>`, ``himalaya`` :ref:`[14]<dup2022>`, ``pycortex``
+:ref:`[15]<gao2015>`, or ``pymoten`` :ref:`[16]<nun2021>`), please cite the
+corresponding publications.
 
-.. [1] Deniz, F., Visconti di Oleggio Castello, M., Dupré La Tour, T., &
-  Gallant, J. L. (2022). Voxelwise encoding models in functional MRI. *In
-  preparation*.
-
-Additionally, if you use ``himalaya``, please cite our (future) publication:
-
-.. [2] Dupré La Tour, T., Eickenberg, M., & Gallant, J. L. (2022).
-	Variance decomposition with banded ridge regression. *In preparation*.
+If you use one of our public datasets in your work (Movie 4T
+:ref:`[3b]<den2022>`, Movie 3T :ref:`[4b]<hut2012data>`), please cite the
+corresponding publications.

doc/voxelwise_modeling.rst

@@ -132,6 +132,7 @@ References
 
 Datasets
 --------
+
 .. _nis2011data:
 
 [3b] Nishimoto, S., Vu, A. T., Naselaris, T., Benjamini, Y., Yu,
@@ -144,8 +145,8 @@ Datasets
     Gallant Lab Natural Movie 3T fMRI Data. CRCNS.org.
     http://dx.doi.org/10.6080/TBD
 
-Tutorials
----------
+Packages
+--------
 
 .. _den2022:
 
@@ -157,3 +158,16 @@ Tutorials
 
 [14] Dupré La Tour, T., Eickenberg, M., & Gallant, J. L. (2022).
 	Variance decomposition with banded ridge regression. *In preparation*.
+
+.. _gao2015:
+
+[15] Gao, J. S., Huth, A. G., Lescroart, M. D., & Gallant, J. L. (2015).
+    Pycortex: an interactive surface visualizer for fMRI. Frontiers in
+    neuroinformatics, 23.
+
+.. _nun2021:
+
+[16] Nunez-Elizalde, A.O., Deniz, F., Dupré la Tour, T., Visconti di Oleggio
+   Castello, M., and Gallant, J.L. (2021). pymoten: scientific python package
+   for computing motion energy features from video. Zenodo.
+   https://doi.org/10.5281/zenodo.6349625

doc/voxelwise_package.rst

@@ -39,17 +39,16 @@ Requirements
 ------------
 
 The package ``voxelwise_tutorials`` has the following dependencies:
-
-- `numpy <https://github.com/numpy/numpy>`_
-- `scipy <https://github.com/scipy/scipy>`_
-- `h5py <https://github.com/h5py/h5py>`_
-- `scikit-learn <https://github.com/scikit-learn/scikit-learn>`_
-- `matplotlib <https://github.com/matplotlib/matplotlib>`_
-- `networkx <https://github.com/networkx/networkx>`_
-- `nltk <https://github.com/nltk/nltk>`_
-- `pycortex <https://github.com/gallantlab/pycortex>`_
-- `himalaya <https://github.com/gallantlab/himalaya>`_
-- `pymoten <https://github.com/gallantlab/pymoten>`_
+`numpy <https://github.com/numpy/numpy>`_,
+`scipy <https://github.com/scipy/scipy>`_,
+`h5py <https://github.com/h5py/h5py>`_,
+`scikit-learn <https://github.com/scikit-learn/scikit-learn>`_,
+`matplotlib <https://github.com/matplotlib/matplotlib>`_,
+`networkx <https://github.com/networkx/networkx>`_,
+`nltk <https://github.com/nltk/nltk>`_,
+`pycortex <https://github.com/gallantlab/pycortex>`_,
+`himalaya <https://github.com/gallantlab/himalaya>`_,
+`pymoten <https://github.com/gallantlab/pymoten>`_.
 
 
 .. |Github| image:: https://img.shields.io/badge/github-voxelwise_tutorials-blue