Hotspots of dendritic spine turnover facilitates new spines and NN sparsity (Frank et al 2018)

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Model for the following publication: Adam C. Frank, Shan Huang, Miou Zhou, Amos Gdalyahu, George Kastellakis, Panayiota Poirazi, Tawnie K. Silva, Ximiao Wen, Joshua T. Trachtenberg, and Alcino J. Silva Hotspots of Dendritic Spine Turnover Facilitate Learning-related Clustered Spine Addition and Network Sparsity
1 . Frank AC, Huang S, Zhou M, Gdalyahu A, Kastellakis G, Silva TK, Lu E, Wen X, Poirazi P, Trachtenberg JT, Silva AJ (2018) Hotspots of dendritic spine turnover facilitate clustered spine addition and learning and memory. Nat Commun 9:422 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell; Connectionist Network;
Brain Region(s)/Organism:
Cell Type(s): Abstract integrate-and-fire leaky neuron with dendritic subunits;
Gap Junctions:
Receptor(s): NMDA;
Simulation Environment: C or C++ program; MATLAB;
Model Concept(s): Active Dendrites; Synaptic Plasticity;
Implementer(s): Kastellakis, George [gkastel at];
Search NeuronDB for information about:  NMDA;
.ignore *
.gitignore *
append_pdfs.m *
copyfig.m *
crop_borders.m *
eps2pdf.m *
export_fig.m *
fix_lines.m *
ghostscript.m *
im2gif.m *
isolate_axes.m *
pdf2eps.m *
pdftops.m *
print2array.m *
print2eps.m *
read_write_entire_textfile.m *
user_string.m *
using_hg2.m *
%APPEND_PDFS Appends/concatenates multiple PDF files
% Example:
%   append_pdfs(output, input1, input2, ...)
%   append_pdfs(output, input_list{:})
%   append_pdfs test.pdf temp1.pdf temp2.pdf
% This function appends multiple PDF files to an existing PDF file, or
% concatenates them into a PDF file if the output file doesn't yet exist.
% This function requires that you have ghostscript installed on your
% system. Ghostscript can be downloaded from:
% IN:
%    output - string of output file name (including the extension, .pdf).
%             If it exists it is appended to; if not, it is created.
%    input1 - string of an input file name (including the extension, .pdf).
%             All input files are appended in order.
%    input_list - cell array list of input file name strings. All input
%                 files are appended in order.

% Copyright: Oliver Woodford, 2011

% Thanks to Reinhard Knoll for pointing out that appending multiple pdfs in
% one go is much faster than appending them one at a time.

% Thanks to Michael Teo for reporting the issue of a too long command line.
% Issue resolved on 5/5/2011, by passing gs a command file.

% Thanks to Martin Wittmann for pointing out the quality issue when
% appending multiple bitmaps.
% Issue resolved (to best of my ability) 1/6/2011, using the prepress
% setting

function append_pdfs(varargin)
% Are we appending or creating a new file
append = exist(varargin{1}, 'file') == 2;
if append
    output = [tempname '.pdf'];
    output = varargin{1};
    varargin = varargin(2:end);
% Create the command file
cmdfile = [tempname '.txt'];
fh = fopen(cmdfile, 'w');
fprintf(fh, '-q -dNOPAUSE -dBATCH -sDEVICE=pdfwrite -dPDFSETTINGS=/prepress -sOutputFile="%s" -f', output);
fprintf(fh, ' "%s"', varargin{:});
% Call ghostscript
ghostscript(['@"' cmdfile '"']);
% Delete the command file
% Rename the file if needed
if append
    movefile(output, varargin{1});

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