GitHub - ModelDBRepository/267297: A model of working memory for encoding multiple items (Ursino et al, in press)

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A model of working memory for encoding multiple items (Ursino et al, in press)
modeldb.science/267297
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Name		Name	Last commit message	Last commit date
Latest commit History 2 Commits
readme.fld		readme.fld
Figure10_dreaming.m		Figure10_dreaming.m
Figure3_alpha.m		Figure3_alpha.m
Figure4_pattern.m		Figure4_pattern.m
Figure5_WMeL1.m		Figure5_WMeL1.m
Figure6_precession.m		Figure6_precession.m
Figure7_desynchronize_fourpatterns.m		Figure7_desynchronize_fourpatterns.m
Figure8_desynchronize_multiplepatterns.m		Figure8_desynchronize_multiplepatterns.m
Figure9_pathologies.m		Figure9_pathologies.m
L1_main.m		L1_main.m
L1_sim.m		L1_sim.m
L1_train_phase1.m		L1_train_phase1.m
L2_main.m		L2_main.m
L2_train_phase2.m		L2_train_phase2.m
L3_main.m		L3_main.m
L3_train_phase3.m		L3_train_phase3.m
MAIN.m		MAIN.m
Training.m		Training.m
WML1_sim.m		WML1_sim.m
corrupt_pattern.m		corrupt_pattern.m
load_patterns.m		load_patterns.m
load_sinapsi.m		load_sinapsi.m
readme.html		readme.html
reteWM_desync.m		reteWM_desync.m
reteWM_sim.m		reteWM_sim.m
reteWM_sim_pat.m		reteWM_sim_pat.m
rete_sim_dream.m		rete_sim_dream.m
sinapsi_SET1.mat		sinapsi_SET1.mat
sinapsi_SET2.mat		sinapsi_SET2.mat
sinapsi_SET3.mat		sinapsi_SET3.mat
vecToIm.m		vecToIm.m
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<p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span
style='mso-ansi-language:EN-US'>DESCRIPTION OF THE MAIN PROGRAMS<o:p></o:p></span></b></p>

<p class=MsoNormal><b style='mso-bidi-font-weight:normal'><u><span
style='mso-ansi-language:EN-US'>Simulations<o:p></o:p></span></u></b></p>

<p class=MsoNormal><span style='mso-ansi-language:EN-US'>It is worth noting
that, in all subsequent programs, the synapses have been already built with a
training procedure, as illustrated in the text, and the synapses so obtained
are loaded from the data files “sinapsi_SET1.mat”, “sinapsi_SET2.mat” or
“sinapsi_SET3.mat” for the three patterns of objects.<o:p></o:p></span></p>

<p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span
style='mso-ansi-language:EN-US'><o:p>&nbsp;</o:p></span></b></p>

<p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span
style='mso-ansi-language:EN-US'>Figure3_alpha.m</span></b><span
style='mso-ansi-language:EN-US'> – a program that reads the patterns to be used
as input and shows the temporal activity of a pyramidal neuron (in the current
program, the neuron at position 10 in layer 1, see <span class=GramE>line<span
style='mso-spacerun:yes'>  </span>25</span>) in the absence of any connection.
The neuron exhibits an alpha rhythm.<o:p></o:p></span></p>

<p class=MsoNormal><span style='mso-ansi-language:EN-US'><o:p>&nbsp;</o:p></span></p>

<p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span
style='mso-ansi-language:EN-US'>Figure4_pattern.m</span></b><span
style='mso-ansi-language:EN-US'> –a program that plots the figures showing the
patterns used in configurations one and two. The individual sections can be run
separately.<o:p></o:p></span></p>

<p class=MsoNormal><span style='mso-ansi-language:EN-US'><o:p>&nbsp;</o:p></span></p>

<p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span
style='mso-ansi-language:EN-US'>Figure5_WMeL1</span></b><span style='mso-ansi-language:
EN-US'> – a program that computes </span><span style='font-size:12.0pt;
line-height:107%;font-family:"Times New Roman",serif;mso-ansi-language:EN-US'>the
behavior in the WM and L1 layers in feedback<o:p></o:p></span></p>

<p class=MsoNormal><span style='font-size:12.0pt;line-height:107%;font-family:
"Times New Roman",serif;mso-ansi-language:EN-US'><o:p>&nbsp;</o:p></span></p>

<p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span
style='font-size:12.0pt;line-height:107%;font-family:"Times New Roman",serif;
mso-ansi-language:EN-US'>Figure6_precession</span></b><span style='font-size:
12.0pt;line-height:107%;font-family:"Times New Roman",serif;mso-ansi-language:
EN-US'> – a program that computes the recovery of a list of objects and phase
precession in the modality “sequence ordering memory.”<o:p></o:p></span></p>

<p class=MsoNormal><span style='font-size:12.0pt;line-height:107%;font-family:
"Times New Roman",serif;mso-ansi-language:EN-US'><o:p>&nbsp;</o:p></span></p>

<p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span
style='font-size:12.0pt;line-height:107%;font-family:"Times New Roman",serif;
mso-ansi-language:EN-US'>Figure7_desynchronize_fourpatterns</span></b><span
style='font-size:12.0pt;line-height:107%;font-family:"Times New Roman",serif;
mso-ansi-language:EN-US'> – a program that simulates the network functioning in
the modality “semantic memory,” where different patterns can be segmented
together. The patterns are chosen in line 22. In this particular configuration,
the first four patterns are used.<o:p></o:p></span></p>

<p class=MsoNormal><span style='font-size:12.0pt;line-height:107%;font-family:
"Times New Roman",serif;mso-ansi-language:EN-US'><o:p>&nbsp;</o:p></span></p>

<p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span
style='font-size:12.0pt;line-height:107%;font-family:"Times New Roman",serif;
mso-ansi-language:EN-US'>Figure8_desynchronize_multiplepatterns</span></b><span
style='font-size:12.0pt;line-height:107%;font-family:"Times New Roman",serif;
mso-ansi-language:EN-US'> – a program that simulates the network functioning in
the modality “semantic memory”: only the average spike density of the different
objects in layer L3 is presented for brevity. The five panels represent model
response when 5, 6, 7, 8, or 9 objects are simultaneously used as input in WM
per 50 <span class=SpellE>ms.</span> Each simulation is shown in a different
section and can be run separately.<o:p></o:p></span></p>

<p class=MsoNormal><span style='font-size:12.0pt;line-height:107%;font-family:
"Times New Roman",serif;mso-ansi-language:EN-US'><o:p>&nbsp;</o:p></span></p>

<p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span
style='mso-ansi-language:EN-US'>Figure9_pathologies</span></b><span
style='mso-ansi-language:EN-US'> – </span><span style='font-size:12.0pt;
line-height:107%;font-family:"Times New Roman",serif;mso-ansi-language:EN-US'>a
program that simulates three examples of model behavior in <i style='mso-bidi-font-style:
normal'>pathological conditions</i>: first section: Alzheimer; second section:
schizophrenia in the sequence ordering modality; third section: schizophrenia
in the semantic modality<o:p></o:p></span></p>

<p class=MsoNormal><span style='font-size:12.0pt;line-height:107%;font-family:
"Times New Roman",serif;mso-ansi-language:EN-US'><o:p>&nbsp;</o:p></span></p>

<p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span
style='font-size:12.0pt;line-height:107%;font-family:"Times New Roman",serif;
mso-ansi-language:EN-US'>Figure10_dreaming</span></b><span style='font-size:
12.0pt;line-height:107%;font-family:"Times New Roman",serif;mso-ansi-language:
EN-US'> – a program that simulates a dreaming condition. The third sequence of
objects with partial superimposition should be loaded to have interesting
behavior. <o:p></o:p></span></p>

<p class=MsoNormal><span style='font-size:12.0pt;line-height:107%;font-family:
"Times New Roman",serif;mso-ansi-language:EN-US'><o:p>&nbsp;</o:p></span></p>

<p class=MsoNormal><span style='font-size:12.0pt;line-height:107%;font-family:
"Times New Roman",serif;mso-ansi-language:EN-US'><o:p>&nbsp;</o:p></span></p>

<p class=MsoNormal><span style='font-size:12.0pt;line-height:107%;font-family:
"Times New Roman",serif;mso-ansi-language:EN-US'><o:p>&nbsp;</o:p></span></p>

<p class=MsoNormal><b style='mso-bidi-font-weight:normal'><u><span
style='font-size:12.0pt;line-height:107%;font-family:"Times New Roman",serif;
mso-ansi-language:EN-US'>Training<o:p></o:p></span></u></b></p>

<p class=MsoNormal><span class=SpellE><b style='mso-bidi-font-weight:normal'><span
style='font-size:12.0pt;line-height:107%;font-family:"Times New Roman",serif;
mso-ansi-language:EN-US'>Training.m</span></b></span><span style='font-size:
12.0pt;line-height:107%;font-family:"Times New Roman",serif;mso-ansi-language:
EN-US'> – This program performs a new training, divided into three steps (layer
L1, L2-L3, and from L3 to L2), and saves the synapses in the arrays Wp_L1L1, A_L2L2,
A_L3L3, K_L2L2, K_L3L3, and Wp_L2L3. <o:p></o:p></span></p>

<p class=MsoNormal><span style='mso-ansi-language:EN-US'><o:p>&nbsp;</o:p></span></p>

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