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SPIKY23.aux
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\@writefile{lof}{\contentsline {figure}{\numberline {1}{\ignorespaces \relax \fontsize {8}{10}\selectfont \abovedisplayskip 7\p@ plus2\p@ minus4\p@ \belowdisplayskip \abovedisplayskip \abovedisplayshortskip \z@ plus1\p@ \belowdisplayshortskip 3\p@ plus1\p@ minus2\p@ \def \leftmargin \leftmargini \labelwidth \labelwidthi \labelsep 0.5em\topsep \z@ \partopsep \z@ \parsep \z@ \itemsep \z@ \listparindent 1em{\topsep 0.5\@bls \parsep \z@ \itemsep \parsep }\sf A. ISI- and SPIKE-distance. Illustration of the local quantities needed to define the dissimilarity profiles $I (t)$ and $S (t)$ for an arbitrary time instant $t$. B. Event synchronization. Illustration of the first variant with adaptive coincidence window. While the middle spikes in the first half are coincident, the middle spikes in the second half are not.}}{4}{figure.1}}
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\newlabel{eq:Corrected-First-ISI}{{18}{5}{Correction of the edge effect for the SPIKE-distance}{equation.2.18}{}}
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\@writefile{lof}{\contentsline {figure}{\numberline {2}{\ignorespaces \relax \fontsize {8}{10}\selectfont \abovedisplayskip 7\p@ plus2\p@ minus4\p@ \belowdisplayskip \abovedisplayskip \abovedisplayshortskip \z@ plus1\p@ \belowdisplayshortskip 3\p@ plus1\p@ minus2\p@ \def \leftmargin \leftmargini \labelwidth \labelwidthi \labelsep 0.5em\topsep \z@ \partopsep \z@ \parsep \z@ \itemsep \z@ \listparindent 1em{\topsep 0.5\@bls \parsep \z@ \itemsep \parsep }\sf Illustration of the memory efficient storage of the dissimilarity profile for both the ISI- and the SPIKE-distance.}}{5}{figure.2}}
\newlabel{fig:No-sampling}{{2}{5}{\abb Illustration of the memory efficient storage of the dissimilarity profile for both the ISI- and the SPIKE-distance}{figure.2}{}}
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\newlabel{eq:Event-MaxDist}{{19}{6}{Event synchronization}{equation.2.19}{}}
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\@writefile{lof}{\contentsline {figure}{\numberline {3}{\ignorespaces \relax \fontsize {8}{10}\selectfont \abovedisplayskip 7\p@ plus2\p@ minus4\p@ \belowdisplayskip \abovedisplayskip \abovedisplayshortskip \z@ plus1\p@ \belowdisplayshortskip 3\p@ plus1\p@ minus2\p@ \def \leftmargin \leftmargini \labelwidth \labelwidthi \labelsep 0.5em\topsep \z@ \partopsep \z@ \parsep \z@ \itemsep \z@ \listparindent 1em{\topsep 0.5\@bls \parsep \z@ \itemsep \parsep }\sf Comparison of PSTH and event synchronization. A. multivariate example with $50$ spike trains. In the first half within the noisy background there are $4$ regularly spaced spiking events with increasing jitter. The second half consists of $10$ spiking events with decreasing jitter but now without any noisy background. PSTH and event synchronization exhibit very similar profiles. The dissimilarity profile of the SPIKE-distance for the same example can be found in Fig. 2B of \citet {Kreuz13}. B-D. By construction the pooled spike train of these examples is identical consisting of $10$ evenly spaced bursts. The only difference is the distribution of the spikes among the individual spike trains. B. High reliability. C. Random distribution of spikes among spike trains. D. Synfire chain. Whereas the PSTH is identical, event synchronization correctly transitions from high to intermediate and low synchrony.}}{6}{figure.3}}
\newlabel{fig:PSTH-ES}{{3}{6}{\abb Comparison of PSTH and event synchronization. A. multivariate example with $50$ spike trains. In the first half within the noisy background there are $4$ regularly spaced spiking events with increasing jitter. The second half consists of $10$ spiking events with decreasing jitter but now without any noisy background. PSTH and event synchronization exhibit very similar profiles. The dissimilarity profile of the SPIKE-distance for the same example can be found in Fig. 2B of \citet {Kreuz13}. B-D. By construction the pooled spike train of these examples is identical consisting of $10$ evenly spaced bursts. The only difference is the distribution of the spikes among the individual spike trains. B. High reliability. C. Random distribution of spikes among spike trains. D. Synfire chain. Whereas the PSTH is identical, event synchronization correctly transitions from high to intermediate and low synchrony}{figure.3}{}}
\newlabel{s:Information-reduction}{{3}{6}{Levels of information reduction}{section.3}{}}
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\citation{Kreuz13}
\@writefile{lof}{\contentsline {figure}{\numberline {4}{\ignorespaces \relax \fontsize {8}{10}\selectfont \abovedisplayskip 7\p@ plus2\p@ minus4\p@ \belowdisplayskip \abovedisplayskip \abovedisplayshortskip \z@ plus1\p@ \belowdisplayshortskip 3\p@ plus1\p@ minus2\p@ \def \leftmargin \leftmargini \labelwidth \labelwidthi \labelsep 0.5em\topsep \z@ \partopsep \z@ \parsep \z@ \itemsep \z@ \listparindent 1em{\topsep 0.5\@bls \parsep \z@ \itemsep \parsep }\sf The different levels of information reduction for the SPIKE-distance. A. Top: Spike rasterplot of $20$ artificially generated spike trains divided in $4$ spike train groups of $5$ spike trains each. The clustering behavior changes every $500$ ms. Bottom: Dissimilarity profiles of the SPIKE-distance for the four spike train groups (thin color-coded lines) and for all spike trains (thick black line). The overall dissimilarity is defined as the temporal average of the dissimilarity profile of all spike trains ($0.192$ in this case) and is marked by a black horizontal line. B-E. Matrices of pairwise instantaneous dissimilarity values for a single time instant, for two selective averages and for a triggered average. F. Matrices of overall pairwise instantaneous dissimilarity values for the $4$ spike train groups. G. Dendrogram of spike train group matrix in F. H-I. Dendrogram of spike train matrices in D and E. Note that the triggered averages in contrast to the overall average captures the local similarity between $5$ of the spike trains.}}{7}{figure.4}}
\newlabel{fig:SPIKE-Representations}{{4}{7}{\abb The different levels of information reduction for the SPIKE-distance. A. Top: Spike rasterplot of $20$ artificially generated spike trains divided in $4$ spike train groups of $5$ spike trains each. The clustering behavior changes every $500$ ms. Bottom: Dissimilarity profiles of the SPIKE-distance for the four spike train groups (thin color-coded lines) and for all spike trains (thick black line). The overall dissimilarity is defined as the temporal average of the dissimilarity profile of all spike trains ($0.192$ in this case) and is marked by a black horizontal line. B-E. Matrices of pairwise instantaneous dissimilarity values for a single time instant, for two selective averages and for a triggered average. F. Matrices of overall pairwise instantaneous dissimilarity values for the $4$ spike train groups. G. Dendrogram of spike train group matrix in F. H-I. Dendrogram of spike train matrices in D and E. Note that the triggered averages in contrast to the overall average captures the local similarity between $5$ of the spike trains}{figure.4}{}}
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\newlabel{s:SPIKY}{{4}{8}{SPIKY}{section.4}{}}
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\newlabel{ss:Access}{{4.1}{8}{Access to SPIKY and how to get started}{subsection.4.1}{}}
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\@writefile{lof}{\contentsline {figure}{\numberline {5}{\ignorespaces \relax \fontsize {8}{10}\selectfont \abovedisplayskip 7\p@ plus2\p@ minus4\p@ \belowdisplayskip \abovedisplayskip \abovedisplayshortskip \z@ plus1\p@ \belowdisplayshortskip 3\p@ plus1\p@ minus2\p@ \def \leftmargin \leftmargini \labelwidth \labelwidthi \labelsep 0.5em\topsep \z@ \partopsep \z@ \parsep \z@ \itemsep \z@ \listparindent 1em{\topsep 0.5\@bls \parsep \z@ \itemsep \parsep }\sf Flowchart describing the workflow of SPIKY from the input of spike train data to the output of results. A typical SPIKY-session begins at the top with `Get data', then goes clockwise and ends on the left with `Get results'. In the center of the circle the SPIKY-logo is depicted.}}{9}{figure.5}}
\newlabel{fig:SPIKY-Flowchart}{{5}{9}{\abb Flowchart describing the workflow of SPIKY from the input of spike train data to the output of results. A typical SPIKY-session begins at the top with `Get data', then goes clockwise and ends on the left with `Get results'. In the center of the circle the SPIKY-logo is depicted}{figure.5}{}}
\@writefile{lof}{\contentsline {figure}{\numberline {6}{\ignorespaces \relax \fontsize {8}{10}\selectfont \abovedisplayskip 7\p@ plus2\p@ minus4\p@ \belowdisplayskip \abovedisplayskip \abovedisplayshortskip \z@ plus1\p@ \belowdisplayshortskip 3\p@ plus1\p@ minus2\p@ \def \leftmargin \leftmargini \labelwidth \labelwidthi \labelsep 0.5em\topsep \z@ \partopsep \z@ \parsep \z@ \itemsep \z@ \listparindent 1em{\topsep 0.5\@bls \parsep \z@ \itemsep \parsep }\sf Annotated screenshot from a movie. A. Artificially generated spike trains. B. Dissimilarity matrices obtained by averaging over two separate time intervals for both the regular and the real-time SPIKE-distance as well as their averages over subgroups of spike trains (denoted by $<\cdot >_G$). C. Corresponding dendrograms.}}{9}{figure.6}}
\newlabel{fig:Movie-Screenshot}{{6}{9}{\abb Annotated screenshot from a movie. A. Artificially generated spike trains. B. Dissimilarity matrices obtained by averaging over two separate time intervals for both the regular and the real-time SPIKE-distance as well as their averages over subgroups of spike trains (denoted by $<\cdot >_G$). C. Corresponding dendrograms}{figure.6}{}}
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\@writefile{lof}{\contentsline {figure}{\numberline {7}{\ignorespaces \relax \fontsize {8}{10}\selectfont \abovedisplayskip 7\p@ plus2\p@ minus4\p@ \belowdisplayskip \abovedisplayskip \abovedisplayshortskip \z@ plus1\p@ \belowdisplayshortskip 3\p@ plus1\p@ minus2\p@ \def \leftmargin \leftmargini \labelwidth \labelwidthi \labelsep 0.5em\topsep \z@ \partopsep \z@ \parsep \z@ \itemsep \z@ \listparindent 1em{\topsep 0.5\@bls \parsep \z@ \itemsep \parsep }\sf Performance comparison of ISI- and SPIKE-distance sampled vs ISI- and SPIKE-distance improved (along with Event Synchronization): Time consumed for computing distances, as a function of the number of spikes in the spike trains. (Light star) SPIKE-distance sampled (integration step $1$ ms), (Dark star) SPIKE-distance piecewise linear, (Dark circle) Event Synchronization, (Star triangle) ISI-distance sampled (integration step $1$ ms), (Dark triangle) ISI-distance piecewise linear.}}{12}{figure.7}}
\newlabel{fig:Fig5-Performance-Comparison}{{7}{12}{\abb Performance comparison of ISI- and SPIKE-distance sampled vs ISI- and SPIKE-distance improved (along with Event Synchronization): Time consumed for computing distances, as a function of the number of spikes in the spike trains. (Light star) SPIKE-distance sampled (integration step $1$ ms), (Dark star) SPIKE-distance piecewise linear, (Dark circle) Event Synchronization, (Star triangle) ISI-distance sampled (integration step $1$ ms), (Dark triangle) ISI-distance piecewise linear}{figure.7}{}}
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\citation{Aronov03}
\citation{Houghton08}
\bibcite{Aronov03}{{1}{2003}{{Aronov}}{{}}}
\bibcite{Bower12}{{2}{2012}{{Bower et al.}}{{}}}
\bibcite{DiPoppa13}{{3}{2013}{{{Di Poppa} and Gutkin}}{{}}}
\bibcite{Gruen09}{{4}{2009}{{Gruen}}{{}}}
\bibcite{Hochberg06}{{5}{2006}{{Hochberg et al.}}{{}}}
\bibcite{Houghton08}{{6}{2008}{{Houghton and Sen}}{{}}}
\bibcite{Kass05}{{7}{2005}{{Kass et al.}}{{}}}
\bibcite{Kreuz07c}{{8}{2007}{{Kreuz et al.}}{{}}}
\bibcite{Kreuz09}{{9}{2009}{{Kreuz et al.}}{{}}}
\bibcite{Kreuz11}{{10}{2011}{{Kreuz et al.}}{{}}}
\bibcite{Kreuz11b}{{11}{2011}{{Kreuz}}{{}}}
\bibcite{Kreuz12}{{12}{2012}{{Kreuz}}{{}}}
\bibcite{Kreuz13}{{13}{2013}{{Kreuz et al.}}{{}}}
\bibcite{Kumar10}{{14}{2010}{{Kumar et al.}}{{}}}
\bibcite{Louis10}{{15}{2010}{{Louis et al.}}{{}}}
\bibcite{Mainen95}{{16}{1995}{{Mainen and Sejnowski}}{{}}}
\bibcite{Miller08}{{17}{2008}{{Miller and Wilson}}{{}}}
\newlabel{s:Acknowledgement}{{3}{13}{Outlook}{footnote.2}{}}
\bibcite{Mormann07}{{18}{2007}{{Mormann et~al.}}{{}}}
\bibcite{Nirenberg07}{{19}{2007}{{Nirenberg and Victor}}{{}}}
\bibcite{Papoutsi13}{{20}{2013}{{Papoutsi et~al.}}{{}}}
\bibcite{Pikovsky01}{{21}{2001}{{Pikovsky et~al.}}{{}}}
\bibcite{QuianQuiroga02b}{{22}{2002}{{{Quian Quiroga} et~al.}}{{}}}
\bibcite{QuianQuiroga13}{{23}{2013}{{{Quian Quiroga} and Panzeri}}{{}}}
\bibcite{Ross97}{{24}{1997}{{Ross}}{{}}}
\bibcite{Rusu14}{{25}{2014}{{Rusu and Florian}}{{}}}
\bibcite{Sacre14}{{26}{2014}{{Sacr\'{e} and Sepulchre}}{{}}}
\bibcite{Sanchez08}{{27}{2008}{{Sanchez}}{{}}}
\bibcite{Shlens08}{{28}{2008}{{Shlens et al.}}{{}}}
\bibcite{Thibeault14}{{29}{2014}{{Thibeault et al.}}{{}}}
\bibcite{Tiesinga08}{{30}{2008}{{Tiesinga et al.}}{{}}}
\bibcite{Truccolo11}{{31}{2011}{{Truccolo et al.}}{{}}}
\bibcite{Victor05}{{32}{2005}{{Victor}}{{}}}
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