sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
054a8dcaf53b81c37defe21bd8d0c1de972255ecddd460ffe0a0e9bfde149891 | NEURON | 3,579 | 130 | TITLE K-A channel from Klee Ficker and Heinemann
: modified by Brannon and Yiota Poirazi (poirazi@LNC.usc.edu)
: to account for Hoffman et al 1997 distal region kinetics
: used only in locations > 100 microns from the soma
:
: modified to work with CVode by Carl Gold, 8/10/03
: Updated by Maria Markaki 12/02/0... |
9178c261795a5fc22c5edeb8bbdee0e9fbad4f536313cc13a37096ad8e43fdb6 | NEURON | 3,586 | 130 | TITLE Non-inactivating inwardly rectifying potassium current (Kir2.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific chan... |
7842c33d1278b7d0427bbdba240c92bf07503a43949045ee9ed5439cb4b0c2f2 | NEURON | 3,594 | 130 | TITLE Noninactivating inwardly rectifying potassium current (Kir2.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific chann... |
f2e0edbb62d03fcc6f6d4421ec3faabfce3b7db115263999ae544a110973b140 | NEURON | 3,595 | 130 | TITLE Noninactivating inwardly rectifying potassium current (Kir2.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific chann... |
8968d815e23d0eb0292a6ecd18da20b0f7ed063ad9a85de26d6a0b572696660a | NEURON | 3,600 | 131 | TITLE Non-inactivating inwardly rectifying potassium current (Kir2.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific chan... |
fff988d0178ae67d8ec87d7ceaeaf43b2ac420138eec20a66673344a6d249e9b | NEURON | 3,608 | 131 | TITLE Noninactivating inwardly rectifying potassium current (Kir2.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific chann... |
f254997657f97b25042cb18a37cb9af984a3a249a5127c94a821ebb346a50783 | NEURON | 3,609 | 131 | TITLE Noninactivating inwardly rectifying potassium current (Kir2.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific chann... |
723e6e388266db78b7c6ee4bd6771bfeef294fba1a09654f6689845deac2b99e | NEURON | 3,657 | 169 | TITLE ichan2.mod
COMMENT
konduktivitas valtozas hatasa- somaban
ENDCOMMENT
UNITS {
(mA) =(milliamp)
(mV) =(millivolt)
(uF) = (microfarad)
(molar) = (1/liter)
(nA) = (nanoamp)
(mM) = (millimolar)
(um) = (micron)
FARADAY = 96520 (coul)
R = 8.3134 (joule/degC)
}
? interface
NE... |
7066cdc02622ac082fd7e71b5135893a65e6ff52631610c2cd77fd0d1c101c96 | NEURON | 3,677 | 168 | TITLE na3
: Na current
: modified from Jeff Magee. M.Migliore may97
: added sh to account for higher threshold M.Migliore, Apr.2002
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
... |
f0cda90ace6f1ee4380bc6aeb4a71e21be0d8494f05699aa170566509aa5f369 | NEURON | 3,694 | 169 | TITLE na3
: Na current
: modified from Jeff Magee. M.Migliore may97
: added sh to account for higher threshold M.Migliore, Apr.2002
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
... |
b40ae91d6ac554ff53c6640d72eb3f935529a2bec4b65a4a0e7f17f328d4d5cb | NEURON | 3,716 | 170 | TITLE ichan2bc.mod
COMMENT
konduktivitas valtozas hatasa- somaban
ENDCOMMENT
UNITS {
(mA) =(milliamp)
(mV) =(millivolt)
(uF) = (microfarad)
(molar) = (1/liter)
(nA) = (nanoamp)
(mM) = (millimolar)
(um) = (micron)
FARADAY = 96520 (coul)
R = 8.3134 (joule/degC)
}
? interface ... |
d3456c96e733350c2e7e7ceb5bcf33300708903351c90a6417a623e39d8e9495 | NEURON | 3,735 | 175 | TITLE ichan2vip.mod
COMMENT
konduktivitas valtozas hatasa- somaban
ENDCOMMENT
UNITS {
(mA) =(milliamp)
(mV) =(millivolt)
(uF) = (microfarad)
(molar) = (1/liter)
(nA) = (nanoamp)
(mM) = (millimolar)
(um) = (micron)
FARADAY = 96520 (coul)
R = 8.3134 (joule/degC)
}
? interface... |
1d2fd21e49aeea4d03f76594a25e19e6a2d70fabda44d1fe9f33cd555172d2be | NEURON | 3,816 | 178 | TITLE ichan2aa.mod
COMMENT
konduktivitas valtozas hatasa- somaban
ENDCOMMENT
UNITS {
(mA) =(milliamp)
(mV) =(millivolt)
(uF) = (microfarad)
(molar) = (1/liter)
(nA) = (nanoamp)
(mM) = (millimolar)
(um) = (micron)
FARADAY = 96520 (coul)
R = 8.3134 (joule/degC)
}
? interface ... |
692b3c1c42601a63166044fdcd8b4db511e3f984b872f112e0bd091b34df3f95 | NEURON | 3,818 | 178 | TITLE ichan2bsZ.mod
COMMENT
konduktivitas valtozas hatasa- somaban
ENDCOMMENT
UNITS {
(mA) =(milliamp)
(mV) =(millivolt)
(uF) = (microfarad)
(molar) = (1/liter)
(nA) = (nanoamp)
(mM) = (millimolar)
(um) = (micron)
FARADAY = 96520 (coul)
R = 8.3134 (joule/degC)
}
? interface... |
bdb7ceac30fa36c5b6b24002fb043ad1a9cc05f449bb75c57cdb01666fb95906 | NEURON | 3,854 | 132 | TITLE simple AMPA receptors
COMMENT
-----------------------------------------------------------------------------
Simple model for glutamate AMPA receptors
=========================================
- FIRST-ORDER KINETICS, FIT TO WHOLE-CELL RECORDINGS
Whole-cell recorded postsynaptic currents mediated by AMP... |
3dce9620102789dd065a76f5d356ecdb4df7f5f9e8656ceed434b2995297b4e2 | NEURON | 3,855 | 154 | TITLE R-type calcium current (Cav2.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param file)
... |
0b37e9e9731d6b81115b934afa06c07dd35c03a6add687100f2a641b051e79b2 | NEURON | 3,869 | 155 | TITLE R-type calcium current (Cav2.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param file)
... |
9b4745e32a4911a901bc79e1d758a74e70c3d4c534c5625e5492043d9864fe13 | NEURON | 3,903 | 155 | COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param file)
e.g. 10% increase wo... |
220d87a9fd1cf5167047e4aec46ff0422086b1612a36013b5499fc72ef82d111 | NEURON | 3,920 | 156 | COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param file)
e.g. 10% increase wo... |
a001ff020f7350ddc3cc93da9e8932e770cc48d843c3ba10a4639698c9484764 | NEURON | 3,926 | 132 | TITLE simple AMPA receptors
COMMENT
-----------------------------------------------------------------------------
Simple model for glutamate AMPA receptors
=========================================
- FIRST-ORDER KINETICS, FIT TO WHOLE-CELL RECORDINGS
Whole-cell recorded postsynaptic currents mediated by AMP... |
105826526282a9ade612218b93a61a8c165f8e09b0346b647ea8c1637fa3cd30 | NEURON | 3,932 | 151 | TITLE Slowly inactivating A-type potassium current (Kv1.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read f... |
a1740088491b9be34b4c3a4c189ba9a030e440b49ac2f93834779d733e042e50 | NEURON | 3,946 | 152 | TITLE Slowly inactivating A-type potassium current (Kv1.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read f... |
feffa28f93ee9d73068da50291556df80e6109a669217dda594f9a8783f98419 | NEURON | 3,946 | 11 | ALPHABET: A C G T
ORDER: 0
SUBST_MOD: REV
TRAINING_LNL: -147749464.400964
BACKGROUND: 0.199248 0.322163 0.263202 0.215387
RATE_MAT:
-1.178539 0.237554 0.794143 0.146842
0.146919 -0.840123 0.197056 0.496148
0.601179 0.241199 -1.001396 0.159018
0.135839 0.742108 0.194319 -... |
a99abec50075db5b39f21cae205097c57b832cf256de961a1b2772111047f3a6 | NEURON | 4,108 | 11 | ALPHABET: A C G T
ORDER: 0
SUBST_MOD: REV
TRAINING_LNL: -12053188.239476
BACKGROUND: 0.271016 0.238256 0.198796 0.291932
RATE_MAT:
-1.009804 0.165483 0.738331 0.105990
0.188237 -0.962703 0.208199 0.566267
1.006555 0.249525 -1.466376 0.210295
0.098396 0.462151 0.143204 -0... |
fb5476b4d3a8114bab12b1f06f193c459cd6678f070d970d690c820b59933e7b | NEURON | 4,120 | 11 | ALPHABET: A C G T
ORDER: 0
SUBST_MOD: REV
TRAINING_LNL: -12054644.793099
BACKGROUND: 0.271016 0.238256 0.198796 0.291932
RATE_MAT:
-1.038242 0.158437 0.754539 0.125266
0.180222 -0.935688 0.155249 0.600217
1.028652 0.186065 -1.409014 0.194296
0.116291 0.489859 0.132310 -0... |
bd9027dfda7baa7ce9b6871509990aa12c175c189c1305b345bb92f49859b08f | NEURON | 4,151 | 147 | TITLE Non-inactivating inwardly rectifying potassium current (Kir2.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific chan... |
30cdbe2e302f975c084d6a9b7983c3be49ea3a0286998c4485da01d32ede1b04 | NEURON | 4,173 | 149 | TITLE Non-inactivating inwardly rectifying potassium current (Kir2.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific chan... |
3c2734382eb6dd9091fc91b3e3bcf8c5141ce29f9b9b5912e1ebf3c3cd536b85 | NEURON | 4,173 | 149 | TITLE Non-inactivating inwardly rectifying potassium current (Kir2.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific chan... |
22a33e622d3e667f86db492ad28d58c13b2ab0c7e58e5ca999a0b396e52fd486 | NEURON | 4,175 | 149 | TITLE Non-inactivating inwardly rectifying potassium current (Kir2.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific chan... |
527482c45003db1277648a012ebf7fa72022540c3a8a7940f41e992258b6e4d6 | NEURON | 4,193 | 172 | TITLE HH channel that includes both a sodium and a delayed rectifier channel
: and accounts for sodium conductance attenuation
: Bartlett Mel-modified Hodgkin - Huxley conductances (after Ojvind et al.)
: Terrence Brannon-added attenuation
: Yiota Poirazi-modified Kdr and Na threshold and time constants to make it mo... |
47b172d4d7ea39b0d9b3153ab9fa666fcecba5f65515297c82040ae49c959951 | NEURON | 4,213 | 169 | TITLE HH channel that includes both a sodium and a delayed rectifier channel
: and accounts for sodium conductance attenuation
: Bartlett Mel-modified Hodgkin - Huxley conductances (after Ojvind et al.)
: Terrence Brannon-added attenuation
: Yiota Poirazi-modified Kdr and Na threshold and time constants
: to make it ... |
0b5025ba7007989b2a91a98d9e86cdca0c6fd50eae5270d31321a81ad704a32e | NEURON | 4,242 | 141 | TITLE calcium permeable AMPA receptor (used in FS interneuron models)
COMMENT
-----------------------------------------------------------------------------
calcium permeable AMPA receptor (used in FS interneuron models)
=========================================
- FIRST-ORDER KINETICS, FIT TO WHOLE-CELL RECORDIN... |
1121284632f8f43270c8c34ea94f3d007b2f75fc1285b668d727fa233aa4c743 | NEURON | 4,291 | 177 | TITLE GABA_A synapse with short-term plasticity
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the par... |
b868953b732be1dd874c0271f7d7175b313b69eda06847916f4734effc3ead9e | NEURON | 4,313 | 179 | TITLE GABA_A synapse with short-term plasticity
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the par... |
fa610b68a464f4d3b541b6f09306bc360307d7f26db0a03200438708d2d8bb1a | NEURON | 4,313 | 179 | TITLE GABA_A synapse with short-term plasticity
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the par... |
fc62466fe6e26e6c0f125ede1e3935dee31826f7a90428684bfc0d2be7e2b675 | NEURON | 4,315 | 179 | TITLE GABA_A synapse with short-term plasticity
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the par... |
2655b10fc830e15aadc786abc62edb9f41942bb0861997d90a2b4df02f657b08 | NEURON | 4,335 | 168 | TITLE Fast A-type potassium current (Kv4.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param f... |
1bb951475420e0c94f48d04f085d5539168ed53e273f0fc9b5fcf99fa4e77ac2 | NEURON | 4,351 | 164 | :Migliore file Modify by Maciej Lazarewicz (mailto:mlazarew@gmu.edu) May/16/2001
TITLE Calcium ion accumulation and diffusion
: The internal coordinate system is set up in PROCEDURE coord_cadifus()
: and must be executed before computing the concentrations.
: The scale factors set up in this procedure do not have to b... |
9001707bd2e2432458304c86edc60cc026ffbdebcb941b107b407b2d1d9af3fe | NEURON | 4,357 | 170 | TITLE Fast A-type potassium current (Kv4.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param f... |
fa76bdb4ef3397ebc38a412d91385fa250e45a1252f6604aaaed69b5e7ee9b20 | NEURON | 4,357 | 170 | TITLE Fast A-type potassium current (Kv4.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param f... |
71838889da40b6eace5a8cc931d2d6d93b18754854078d438bd70f9dd0a78a17 | NEURON | 4,359 | 170 | TITLE Fast A-type potassium current (Kv4.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param f... |
385dc4831a05e4039e2d507d158b0b404ee8e87765cfb44c0e776cb0e33879cb | NEURON | 4,436 | 148 | TITLE minimal model of GABAa receptors
COMMENT
-----------------------------------------------------------------------------
Minimal kinetic model for GABA-A receptors
==========================================
Model of Destexhe, Mainen & Sejnowski, 1994:
(closed) + T <-> (open)
The simplest kinetics are co... |
eae9ea45dff760da7c408eaedb4b0f91d805bd8580e8329b884dac1356e36146 | NEURON | 4,437 | 182 | COMMENT
/**
* @file VecStim.mod
* @brief
* @author king
* @date 2011-03-16
* @remark Copyright 2005-2023 Blue Brain Project / EPFL
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
*
* You may obtain a copy of the License a... |
73753009803c98c73d597fe51002d1a357afab8e45cb73c33a882ebcffaaa818 | NEURON | 4,462 | 150 | TITLE minimal model of GABAa receptors
COMMENT
-----------------------------------------------------------------------------
Minimal kinetic model for GABA-A receptors
==========================================
Model of Destexhe, Mainen & Sejnowski, 1994:
(closed) + T <-> (open)
The simplest kinetics are co... |
659d28d9489eb3cc1e4ec09f425750fcd02e56649f95b5c59044d628f694c0cd | NEURON | 4,517 | 170 | TITLE N-type calcium current (Cav2.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param file)
... |
90e669274103f1c4da6c72e3d2284aca94d7fc775cb0e7d250c0be623e41a9ca | NEURON | 4,543 | 150 | TITLE minimal model of GABAa receptors
COMMENT
-----------------------------------------------------------------------------
Minimal kinetic model for GABA-A receptors
==========================================
Model of Destexhe, Mainen & Sejnowski, 1994:
(closed) + T <-> (open)
The simplest kinetics are co... |
2c42bcf2d59d11ab6d851b524d46ab82ab5d2b7366159a443a55fbf85c22c811 | NEURON | 4,548 | 173 | TITLE N-type calcium current (Cav2.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param file)
... |
6a06c0a6b1b914282f6bef0b34b321e63880561cdfd604a61aa7bddacfe6ffa8 | NEURON | 4,548 | 173 | TITLE N-type calcium current (Cav2.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param file)
... |
502e3b9a593c796cee23752a844cb76d7f0e5f6e9ed10884dee656dcfefb8aae | NEURON | 4,550 | 173 | TITLE N-type calcium current (Cav2.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param file)
... |
a629da1b79e1958d72ff706748614c67ed0de590cb10396ab8280cb14ab726cc | NEURON | 4,561 | 176 | TITLE HVA L-type calcium current (Cav1.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param fil... |
18bcfe3f2788939add5fa98b9961b532ad9e441dba39d177dd82e2cb3d2c26dc | NEURON | 4,585 | 178 | TITLE HVA L-type calcium current (Cav1.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param fil... |
957be11373e57bdcbbb3e507252dee72a616308eaf556d72c719f09ec0b83c21 | NEURON | 4,585 | 178 | TITLE HVA L-type calcium current (Cav1.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param fil... |
625ae2d33bb3de160e9db6c98f8ad85eb5cb32bb85194265f1bb808d7207edf3 | NEURON | 4,587 | 178 | TITLE HVA L-type calcium current (Cav1.2)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param fil... |
4033dbb4ad8c0c91c82f66aeaf8046ee2ac78d2abb23e7300e2eca8d7ee7f9ce | NEURON | 4,589 | 150 | TITLE minimal model of GABAa receptors
COMMENT
-----------------------------------------------------------------------------
Minimal kinetic model for GABA-A receptors
==========================================
Model of Destexhe, Mainen & Sejnowski, 1994:
(closed) + T <-> (open)
The simplest kinetics are co... |
61a4684b09c61414b7017d30d4af666b456fb7ff85185dbcbaa220bf6dd504c9 | NEURON | 4,723 | 178 | TITLE LVA L-type calcium current (Cav1.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param fil... |
80b8912533b16d0e9f8d57938a6b32ad8a33adc26f41992d6f5b7c7dadc89afc | NEURON | 4,747 | 180 | TITLE LVA L-type calcium current (Cav1.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param fil... |
be81d854aef81c2833cab4f8a338a69bb132f48d30d292fb8d6151392bfa52f8 | NEURON | 4,747 | 180 | TITLE LVA L-type calcium current (Cav1.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param fil... |
92a68b43a6cb579a77d4c58d022f2be2cd1d89afbd0f23183e1595c55351bd5a | NEURON | 4,749 | 180 | TITLE LVA L-type calcium current (Cav1.3)
COMMENT
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation on or off {1/0}
maxModDA [1]: is the maximum modulation for this specific channel (read from the param fil... |
0c8501f51f3729a6a751eb5422d29ef8a323c0916c0cdcd068ebc4ff4f6851b1 | NEURON | 5,100 | 108 |
TITLE Slow Ca-dependent cation current
:
: Ca++ dependent nonspecific cation current ICAN
: Differential equations
:
: Model based on... |
12b8772cd51887d045c37e1625be247c5852e7d314135acd52e693c1c9e42012 | NEURON | 5,219 | 262 | //Initialize NEURON
load_file("nrngui.hoc")
v_init=-68 //for interneuron
//-----Objects for record data
objref cv
cv=new CVode()
cvode.active(0)
tstop=2000 //2000//500
steps_per_ms=10
dt=1/steps_per_ms
n=int(tstop/dt)
objref all_msec
all_msec = new Vector(n,0)
for q=0,n-1 {all_msec.x[q]=q*dt}
//print n
... |
2a0e9644fd744e7b3c0e90bb4b7a3402bbf716180bcbe44abf031360afba00e3 | NEURON | 6,272 | 307 | // Network cell template
// PyramidalCell
// modified bv y Alexandra Tzilivaki alexandra_tzilivaki@charite.de
begintemplate PyramidalCell
public is_art
public init, topol, basic_shape, subsets, geom, biophys, geom_nseg
public pre_list
public x, y, z, position//aleka vldadimirov 2013
// dend[0]=dend[0] dend[1]=dend[... |
5f88bf89d8451108c6fa118e3c862f2e65be6c676e892006409b0c6826229824 | NEURON | 7,535 | 282 | TITLE Glutamatergic synapse with short-term plasticity (stp)
COMMENT
stp can be turned of by setting use_stp == 0
--------------------------------------------
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation ... |
c85eb434b3ceb21b5dba4e06a6b2e68e5954384873aeca42e29bf5cd0fe1b11b | NEURON | 7,671 | 274 | TITLE Glutamatergic synapse with short-term plasticity (stp)
COMMENT
stp can be turned of by setting use_stp == 0
--------------------------------------------
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation ... |
3ffca435bab18ea259e088996c8629f85a45ec88f81698a2d66adc01288faf87 | NEURON | 7,693 | 276 | TITLE Glutamatergic synapse with short-term plasticity (stp)
COMMENT
stp can be turned of by setting use_stp == 0
--------------------------------------------
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation ... |
56f7a24cf500ab74958502feed7f2d592ef7b1a8b9200e935be86c4b81c7dd5e | NEURON | 7,693 | 276 | TITLE Glutamatergic synapse with short-term plasticity (stp)
COMMENT
stp can be turned of by setting use_stp == 0
--------------------------------------------
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation ... |
92980e9c845aa8012383531323d5858b3caf5caae3390e8059bbae2b634c9319 | NEURON | 7,695 | 276 | TITLE Glutamatergic synapse with short-term plasticity (stp)
COMMENT
stp can be turned of by setting use_stp == 0
--------------------------------------------
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation ... |
6551a43d3754b04bd957cecc2845b41672f16159097e8f4112425c42a1b64559 | NEURON | 8,029 | 302 | TITLE Glutamatergic synapse with short-term plasticity (stp)
COMMENT
stp can be turned of by setting use_stp == 0
--------------------------------------------
Neuromodulation is added as functions:
modulationDA = 1 + modDA*(maxModDA-1)*levelDA
where:
modDA [0]: is a switch for turning modulation ... |
18b78bc42583c88e490001e4fe1b581804538654fac21bfc72f74ceeb73d7f1e | NEURON | 8,833 | 299 | //Circuit connections
// Connect neurons
objref delstim, delpyrpv, delpvpyr, r, locpi, ran, delpvpv, rpv
// Number of Synapses
maxsynpyrpyr=4
maxsynpyrpv=5//25//25 //15
maxsynpvpyr=1//2
maxsynpvpv=4
//CA3 FEEDBACK PV to PYR
objref gabaa[numberpvs][numberpyrs][maxsynpvpyr], gabab[numberpvs][numberpyrs][maxsynpvpyr]... |
2d47dd4324f153a7c9e1f58f8692b0edaa3700e02415717ee9883d3d8aa7bbbd | NEURON | 10,576 | 314 | COMMENT
/**
* @file ProbAMPANMDA_EMS.mod
* @brief
* @author king, muller, reimann, ramaswamy
* @date 2011-08-17
* @remark Copyright © BBP/EPFL 2005-2011; All rights reserved. Do not distribute without further notice.
*/
ENDCOMMENT
TITLE Probabilistic AMPA and NMDA receptor with presynaptic short-term plasticity
... |
94e998054c24b9e30da87bbede31d75b2a20b3b7de197fb4539d3f24a9a6ef5c | NEURON | 11,001 | 342 | COMMENT
/**
* @file DetAMPANMDA.mod
* @brief Adapted from ProbAMPANMDA_EMS.mod by Eilif, Michael and Srikanth
* @author chindemi
* @date 2014-05-25
* @remark Copyright 2005-2023 Blue Brain Project / EPFL
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in c... |
068a99f2549c5c324d8c5030e6eb82ed33c260e0c9730f4449afce939170024e | NEURON | 11,090 | 340 | COMMENT
/**
* @file DetGABAAB.mod
* @brief Adapted from ProbGABAA_EMS.mod by Eilif, Michael and Srikanth
* @author chindemi
* @date 2014-05-25
* @remark Copyright 2005-2023 Blue Brain Project / EPFL
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compli... |
b8cdef8ca05c9fdcd56bf26ad55e98d7b63f2feb1d04f1ac1d4f6bf579669139 | NEURON | 11,093 | 419 | /*
Copyright (c) 2022 EPFL-BBP, All rights reserved.
THIS SOFTWARE IS PROVIDED BY THE BLUE BRAIN PROJECT ``AS IS''
AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO,
THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE BLUE BRAIN PROJEC... |
9cdccf46d33c0532d486658eaef91910a124f35e3313390655123716cf5b2c2b | NEURON | 11,096 | 419 | /*
Copyright (c) 2022 EPFL-BBP, All rights reserved.
THIS SOFTWARE IS PROVIDED BY THE BLUE BRAIN PROJECT ``AS IS''
AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO,
THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE BLUE BRAIN PROJEC... |
468b6473b864bfcfa40d3be8e111e665ed5be90589981bec01a752196d30513e | NEURON | 15,041 | 550 | TITLE skm95.mod
COMMENT
----------------------------------------------------------------
Stochastic version of the K channel mechanism kd3h5.mod by
Z. Mainen in Mainen & Sejnowski 95.
This represents a potassium channel, with Hodgkin-Huxley like kinetics,
based on the gates model, assuming stochastic opening and clos... |
216fe24cf8548d607376bac9ee3a50b1dc415346f6ec2372005a1d88d83f5658 | NEURON | 15,398 | 545 | TITLE StochKv3.mod
COMMENT
----------------------------------------------------------------
Stochastic inactivating channel using values reported in Mendonca et al. 2016.
(Modified from https://senselab.med.yale.edu/modeldb/showmodel.cshtml?model=125385&file=/Sbpap_code/mod/skaprox.mod)
The model keeps track on the n... |
686f3efa575c2f974197d77d51295424ab8496d7529216cd2285c5b699d9e328 | NEURON | 15,676 | 583 | COMMENT
/**
* @file netstim_inhpoisson.mod
* @brief Inhibitory poisson generator by the thinning method.
* @author Eilif Muller
* @date 2011-03-16
* @remark Copyright 2005-2023 Blue Brain Project / EPFL
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in co... |
12ff2476761cf095099531a42174b23e01ee857fc11a0e92e083fb8e24c59f0a | NEURON | 20,286 | 620 | COMMENT
/**
* @file ProbAMPANMDA_EMS.mod
* @brief
* @author king, muller, reimann, ramaswamy
* @date 2011-08-17
* @remark Copyright 2005-2023 Blue Brain Project / EPFL
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
*
* Y... |
66a82755e44bfe215365b39371a642a995658bd5adc6ad299024e497ab5af9c1 | NEURON | 20,437 | 624 | COMMENT
/**
* @file ProbGABAAB.mod
* @brief
* @author king, muller
* @date 2011-08-17
* @remark Copyright 2005-2023 Blue Brain Project / EPFL
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
*
* You may obtain a copy of th... |
62b906c4f518bfde90e6b91eb654cdcef08fd7408a8020fda199196dd9bcad3d | NEURON | 26,167 | 699 | COMMENT
/**
* @file GluSynapse.mod
* @brief Probabilistic synapse featuring long-term plasticity
* @author king, chindemi, rossert
* @date 2021-05-19
* @version 1.0.1
* @remark Copyright 2005-2023 Blue Brain Project / EPFL
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use t... |
7f37a82de488b4e6cf454731389397eeb14401c8baf9b7553553708861a7b8a0 | NEURON | 72,801 | 2,082 | //execute1("celltypes.element(\"Cell\")")
begintemplate Cell
public init, topol, basic_shape, subsets, geom, biophys, geom_nseg, biophys_inhomo
public synlist, x, y, z, position, connect2target
public soma, axon, dend, ais
public all, somatic, axonal, basal
objref synlist
proc init() {
topol()
subsets()
geom(... |
00004f9c40427e94a22f8273eab0ee0e5adaced84e349ddfc24dffeb49bc9714 | NEURON | 89,640 | 2,521 | proc celldef() {
topol()
subsets()
geom()
biophys()
geom_nseg()
}
create soma, axon, dend[7], apic[43]
proc topol() { local i
connect axon(0), soma(0)
for i = 0, 3 connect dend[i](0), soma(0)
for i = 4, 5 connect dend[i](0), dend[3](1)
connect dend[6](0), soma(0)
connect apic(0), soma(1)
for i =... |
4f7a8f93b4cd49aaca5ee852078a277b5ac810d499f49f05aabd4cc309e1e4e1 | NEURON | 200,000 | 5,325 | begintemplate FScell
public is_art
public init, topol, basic_shape, subsets, /*geom,*/ biophys//, geom_nseg
public pre_list, connect2target
public x, y, z, position
public all, soma,/* axon,*/ dend, /*axonal,*/ basal_prox, basal_dist
public dendproxNo, denddistNo
public unscrProx, unscrDist
objref pre_list
proc i... |
872aac4fd032953a17aae7a63afcad368c33e1ae3f361a53a374f7e18d2f2647 | NEURON | 200,000 | 5,559 | //execute1("celltypes.element(\"Cell\")")
begintemplate Cell
public init, topol, basic_shape, subsets, geom, biophys, geom_nseg, biophys_inhomo
public synlist, x, y, z, position, connect2target
public soma, dend, axon, ais
public all, somatic, axonal, basal
objref synlist
proc init() {
topol()
subs... |
8a25603ea5e2c5f2fe5d0f8da4d5ad21dfab6d801a57e97c2cb978a26bf1f12d | NEURON | 200,000 | 5,227 | //execute1("celltypes.element(\"Cell\")")
begintemplate Cell
public init, topol, basic_shape, subsets, geom, biophys, geom_nseg, biophys_inhomo
public synlist, x, y, z, position, connect2target
public soma, axon, dend, ais
public all, somatic, axonal, basal
objref synlist
proc init() {
topol()
subs... |
abc76436c4d55cdd3462c87887a1d7a519aa60d2d2110d16e1bd980b19c93857 | NEURON | 200,000 | 5,482 | //execute1("celltypes.element(\"Cell\")")
begintemplate Cell
public init, topol, basic_shape, subsets, geom, biophys, geom_nseg, biophys_inhomo
public synlist, x, y, z, position, connect2target
public soma, dend, axon, ais
public all, somatic, axonal, basal
objref synlist
proc init() {
topol()
subs... |
f3db57d56602780ec3e39b2f3225f5977c70f5bbc97b93c3ef2c1fea47972c50 | NEURON | 200,000 | 5,945 | //execute1("celltypes.element(\"Cell\")")
begintemplate Cell
public init, topol, basic_shape, subsets, geom, biophys, geom_nseg, biophys_inhomo
public synlist, x, y, z, position, connect2target
public soma, dend, axon, ais
public all, somatic, axonal, basal
objref synlist
proc init() {
topol()
subs... |
e6d18a360b2bf41e996b472bedee7a119af7afd891179cec36dc920cfee8c30d | Perl | 69 | 7 | #!/usr/bin/env perl
use strict;
use warnings;
exit(int(rand(3)));
|
ad160d86aecedbf40ed526dbb9fc8e3a57d120237bc2b1d6e182a6fdbb630ea8 | Perl | 105 | 8 | #!/usr/bin/env perl
use strict;
while (<STDIN>) {
tr/\t\n\000-\037\177-\377/\t\n /d;
print;
}
|
2c8b449d6ab9d92ad2caea3a34acd209ecdbfca7d3f2c6d2896ab8c42b9fa544 | Perl | 144 | 12 | #!/usr/bin/perl -w
my $count=0;
while(<>){
if($count%4==0){
print ">", substr($_, 1);
} elsif($count%4==1){
print $_;
}
$count++;
}
1;
|
9e2e30e29920030a964c466860715a3801c79a5ecc097034d0efcfcaa170ae35 | Perl | 151 | 7 | use ExtUtils::MakeMaker;
WriteMakefile(
'NAME' => 'marisa',
'LIBS' => ['-lmarisa'],
'OBJECT' => 'marisa-swig.o marisa-swig_wrap.o'
);
|
18a042d806cc909385f95aa0b1bf160c0258867b4eaf54df9c226bdd0ff05b27 | Perl | 160 | 6 | use ExtUtils::MakeMaker;
WriteMakefile(NAME => 'alien_index',
EXE_FILES => ['alien_index',
'remove_aliens']);
|
09e5c82b32cfc4b9e211023842d4a6c580398b69092ee528803d62498a6f79c2 | Perl | 180 | 17 | #!/usr/bin/perl -w
#
use strict;
my $n = shift or die("Usage: $0 <num_of_seqs> [fasta_file]\n");
my $m = 0;
while(<>){
if(/^>/){
last if($m == $n);
$m ++;
}
print;
}
1;
|
48ee0fe8267183a8dccd47a3c196192228a9da2e361420056f6d2dd346a66123 | Perl | 188 | 11 | #!/usr/bin/env perl
use strict;
use warnings;
my $usage = "usage: $0 matrix.fpkm venn.class\n\n";
my $fpkm_matrix = $ARGV[0] or die $usage;
my $venn_class = $ARGV[1] or die $usage;
|
2f2c1252e24f35c9c4429b7923ac49e96ac31c765b8d89de207fd10681f26b45 | Perl | 206 | 18 | #!/usr/bin/perl -w
#
use strict;
my $n = shift or die("Usage: $0 <num_of_bases> [fasta_file]\n");
my $m = 0;
while(<>){
if(/^>/){
last if($m >= $n);
} else {
$m += length($_) - 1;
}
print;
}
1;
|
12a028d42748381786e8fe474d07ebfb1936f7e14c0845cf7d7336a1d41cfccd | Perl | 212 | 22 | #!/usr/bin/env perl
use strict;
use warnings;
use List::Util qw (shuffle);
my @list;
while (<STDIN>) {
push (@list, $_);
}
@list = shuffle @list;
foreach my $ele (@list) {
print $ele;
}
exit(0);
|
63347238c40b5978080fe62e2766d8389825601d8dcbcf682592e5d785ecd84f | Perl | 223 | 18 | #!/usr/bin/env perl
use strict;
use warnings;
my @files = @ARGV;
foreach my $file (@files) {
open (my $fh, $file) or die $!;
while (<$fh>) {
chomp;
print "$_\n";
}
close $fh;
}
exit(0);
|
ce67cbb0a7a83bfe49900d41000b6027e7a70f9b35f050795138e52548584551 | Perl | 238 | 20 | #!/usr/bin/perl -w
#
use strict;
my $name;
my $seq = '';
while(<>){
if(/>(\S+)/){
print "$name\t$seq\n" if(defined $name);
$name = $1;
$seq = '';
} else {
chomp;
$seq .= $_;
}
}
print "$name\t$seq\n" if(defined $name);
1;
|
47a09d962612353d22b5b6e284def574f0ab98d7e309cb6c9b8c3eb4ff75f560 | Perl | 278 | 24 | #!/usr/bin/env perl
use strict;
use warnings;
main: {
while (<STDIN>) {
unless (/\w/) { next; }
chomp;
my @x = split (/\t/);
my $seq = pop @x;
# make fasta
$seq =~ s/(\S{60})/$1\n/g;
chomp $seq;
print ">" . join (" ", @x) . "\n$seq\n";
}
exit(0);
}
|
963c42c6d7502373298d3df7908de8e4c42ff1361e8acd5badaabe7a0f6471cf | Perl | 282 | 20 | #!/usr/bin/env perl
use strict;
use warnings;
while (<>) {
chomp;
my @x = split(/\t/);
unless (scalar(@x) == 3) {
die "Error, 3 fields not encountered for: $_";
}
print "\@$x[0]\n"
. "$x[1]\n"
. "+\n"
. "$x[2]\n";
}
exit(0);
|
4eb33e392ec9192a77a4ce531e315c1ba89f22bc350c7bf6d706e2c4c58a3d4f | Perl | 289 | 20 | #!/usr/bin/perl -w
#
# Author: Jue Ruan
#
use strict;
my $rs = [""];
while(<>){
my @ts = split;
if($ts[0] eq $rs->[0]){
$rs = \@ts if($ts[10] > $rs->[10]);
} else {
print join("\t", @{$rs}), "\n" if($rs->[10]);
$rs = \@ts;
}
}
print join("\t", @{$rs}), "\n" if($rs->[10]);
1;
|
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