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Papers in Topological Data Analysis

Neuroscience

fMRI

Cassidy B. and Rae C. (2015)Brain activity: Conditional dissimilarity and persistent homology

Neuron spikes

Spreemann G., Dunn B., Bakke Botnan M., and Baas N.A. (2015)Using persistent homology to reveal hiddeninformation in neural data

Dynamical Systems

Gori M., Franzosi R. and Pettini M. (2018) Topological origin of phase transitions in the absence ofcritical points of the energy landscape

Image Classification

Dey T., Mandal S., Varcho W. (2017) Improved Image Classification using Topological Persistence

Cosmology

Elbers W. and van de Weygaert R. (2018) Persistent topology of the reionisation bubble network. I:Formalism & Phenomenology NOTE: Has a good summary of TDA techniques

Machine Learning

Hofer C., Kwitt R., Niethammer M., Uhl A. (2017)Deep Learning with Topological Signatures

Immune network theory

Merelli E., Rasetti M. and Pettini M. (2015) Topology driven modeling: the IS metaphor

General

Baas N.A. (2018) TOPOLOGY AND HIGHER CONCURRENCIES

Stuff I want to read

THIS
http://www.roboticsproceedings.org/rss10/p54.pdf
https://link.springer.com/chapter/10.1007/978-3-030-00755-3_8
https://arxiv.org/pdf/1809.00050.pdf
https://www.math.uni-hamburg.de/home/iske/papers/asignalKernel2.pdf
http://pages.cs.wisc.edu/~jerryzhu/pub/ijcai16.pdf
https://arxiv.org/pdf/1809.10231.pdf
https://ieeexplore.ieee.org/abstract/document/8451522
https://arxiv.org/abs/1903.01073
https://arxiv.org/pdf/1902.08511.pdf
https://link.springer.com/content/pdf/10.1007%2Fs00454-017-9927-2.pdf
https://www.sciencedirect.com/science/article/pii/S1364661319300427
https://colah.github.io/posts/2014-03-NN-Manifolds-Topology/
https://arxiv.org/pdf/1704.08382.pdf

Not Topology

https://snap.stanford.edu/class/cs224w-readings/burt00capital.pdf#page=1&zoom=auto,-253,792 https://link.springer.com/content/pdf/10.1007/978-3-540-70904-6_6.pdf
https://dfdazac.github.io/sinkhorn.html
https://www.nature.com/articles/s41586-019-0919-7
https://arxiv.org/pdf/1902.09302.pdf
http://statweb.stanford.edu/~cgates/PERSI/papers/MCMCRev.pdf

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Trying to build a compound of applications using Topological Data Analysis to help with article writing and help new researchers navigate the field.

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