smooe docs updates

neurodata · Nov 1, 2022 · b5065be · b5065be
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diff --git a/.gitattributes b/.gitattributes
@@ -1,4 +1,4 @@
 *.ipynb  linguist-vendored=true
 *.ipynb filter=nbstripout
 *.ipynb diff=ipynb
-experiments/register_axons/data/mapping-files.zip filter=lfs diff=lfs merge=lfs -text
+*.zip filter=lfs diff=lfs merge=lfs -text
diff --git a/docs/index.rst b/docs/index.rst
@@ -27,6 +27,7 @@ Documentation
 
     splines
     viterbrain
+    map_neurons
 
 
 .. toctree::

diff --git a/docs/map_neurons.rst b/docs/map_neurons.rst
@@ -0,0 +1,4 @@
+Neuron Sampling and Mapping
+***************************
+
+.. include:: ../experiments/map_neurons/README.rst
diff --git a/docs/reference/algs.rst b/docs/reference/algs.rst
@@ -35,6 +35,8 @@ Trace Analysis
 .. autoapifunction:: speed
 .. autoapifunction:: curvature
 .. autoapifunction:: torsion
+.. autoapiclass:: CubicHermiteChain
+	:members:
 .. autoapiclass:: GeometricGraph
 	:members:
 

diff --git a/experiments/ViterBrain/README.rst b/experiments/ViterBrain/README.rst
@@ -1,7 +1,12 @@
 Manuscript
 ----------
 
-Athey, T. L., Tward, D. J., Mueller, U., & Miller, M. I. (2021). Hidden Markov Modeling for Maximum Likelihood Neuron Reconstruction. *arXiv preprint arXiv*:2106.02701.
+Athey, T.L., Tward, D.J., Mueller, U. et al. Hidden Markov modeling for maximum probability neuron reconstruction. Commun Biol 5, 388 (2022). https://doi.org/10.1038/s42003-022-03320-0.
+
+Relevant directory
+------------------
+
+``brainlit/experiemnts/ViterBrain``
 
 
 How to use ViterBrain

diff --git a/experiments/axon_geometry/README.rst b/experiments/axon_geometry/README.rst
@@ -5,6 +5,11 @@ Athey, T. L., Teneggi, J., Vogelstein, J. T., Tward, D. J., Mueller, U., & Mille
 
 DOI: https://doi.org/10.3389/fninf.2021.704627
 
+Relevant directory
+------------------
+
+``brainlit/experiemnts/axon_geometry``
+
 How to reproduce this experiment
 --------------------------------
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@@ Expand Up / @@ -27,6 +27,7 @@ Documentation @@
         splines
         viterbrain
+        map_neurons
     .. toctree::
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