History Graph
History Graph
Commit | Author | Details | Committed | |||
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678bec02c372 | Theo Lemaire | added "PI" type control of convergence in nbls.evaluateStability method | May 23 2019 | |||
1a5f9b3c215b | Theo Lemaire | implemented neuron-dependent titration to find specific thresholds (excitation… | May 22 2019 | |||
0ee058e8778d | Theo Lemaire | added max integration duration to stability analysis to avoid infinite loops in… | May 22 2019 | |||
3addfe632329 | Theo Lemaire | implemented quasiSteadyStateFixedPoints as part of nbls class. Added… | May 22 2019 | |||
2024b001441b | Theo Lemaire | implemented nbls.quasiSteadStateiNet method, used to compute Q-SFPs iteratively… | May 22 2019 | |||
6b55fdb84a7a | Theo Lemaire | added nA command line argument to plot_QSS_IQ.py | May 21 2019 | |||
8a17ab2f8c11 | Theo Lemaire | implemented specific nbls evaluateStability method to evaluate FP stability by… | May 21 2019 | |||
14f3b43f5ec7 | Theo Lemaire | added negative offset to QSS perturbation | May 20 2019 | |||
df4bf6f7892b | Theo Lemaire | added warning note about why QSS cannot be interpolated accurately and must be… | May 17 2019 | |||
3e55319aff15 | Theo Lemaire | added fixed point classification based on perturbation reaction in QSS analysis. | May 17 2019 | |||
4d8fa0caef5b | Theo Lemaire | added isTitratable method to neuron classes. improved QSS SFP stability… | May 17 2019 | |||
3ad8ad914eec | Theo Lemaire | replaced linear interpolation of QSS at Q-SFPs (inaccurate) by full… | May 16 2019 | |||
3f4135902bdc | Theo Lemaire | added np.nan bounding to all np.interp uses in the code. implemented… | May 16 2019 | |||
a66b375c6133 | Theo Lemaire | implemented getLookupsDCavg function to compute DC-averaged lookups. nbls. | May 15 2019 | |||
ee9cf8652b7e | Theo Lemaire | simplified nbls.quasiSteadyStates method, now calling explicit quasiSeadyStates… | May 15 2019 | |||
62c6723c6e71 | Theo Lemaire | changed PointNeuron getEffrates, steadyStates, derStates and derEffStates… | May 14 2019 | |||
7a27b761d220 | Theo Lemaire | major improvements to QSS module | May 10 2019 | |||
536de29806e2 | Theo Lemaire | added ref mode to QSSvar with phase plot arrows. | May 6 2019 | |||
44780023da34 | Theo Lemaire | corrected titrate function to work also with negative injected currents (for… | Apr 29 2019 | |||
ddab2a4571ea | Theo Lemaire | adapted plotQSSVarVsAmp and plotEqChargeVsAmp functions for ESTIM use (not… | Apr 8 2019 | |||
f7c982e3c3ea | Theo Lemaire | added Qi-conditional graphs labeling for plotQSSVarVsAmp and plotEqChargeVsAmp | Apr 5 2019 | |||
490706425b05 | Theo Lemaire | corrected nbls.quasiSteadyStates to return DC-averaged Vmeff, and adapted nbls. | Apr 5 2019 | |||
6ffd825273a4 | Theo Lemaire | improved titrate function with nSpikes methods pneuron and nbls classes. added… | Apr 5 2019 | |||
9f09f2fdc039 | Theo Lemaire | Changed titration functions (now using generic titrate), Implemented Xinf… | Apr 4 2019 | |||
178930fa846c | tlemaire | added generic plot_QSS_IQ.py script to plot the IQ phase-plane diagram for a… | Mar 26 2019 | |||
a2726a130bec | tlemaire | implemented new QSS plot module with generic plotVarDynamics, plotVarsQSS and… | Mar 26 2019 | |||
8a71066a647c | tlemaire | replaced lookups list by lookups dict in all derStatesEff methods. added get… | Mar 26 2019 | |||
6f96c02c5ecb | tlemaire | corrected STN lookups, comparison of temporal profiles of spontaneous activity… | Mar 20 2019 | |||
cf921135e3f2 | tlemaire | moved membrane currents in 2rd position of neurons pltscheme. extractPltVar now… | Mar 18 2019 | |||
895dbbeb52ae | tlemaire | removed old pltvars dictionary. | Mar 15 2019 | |||
6bc050dea626 | tlemaire | added rates to pneuron.getPltVars method. adapted use in plotEffectiveVariables… | Mar 15 2019 | |||
ad0a33b92c3c | tlemaire | adapted plotComp to new plot variables scheme. | Mar 15 2019 | |||
a812d7d527af | tlemaire | created plt.pltutils module and moved relevant plotting functions into it. | Mar 15 2019 | |||
81554e5d4d67 | tlemaire | removed states0 attribute from neuron classes (now calling steadyStates method… | Mar 14 2019 | |||
453f896987ce | tlemaire | generalized the use of getPltVars and getPltScheme with inheritance scheme… | Mar 14 2019 | |||
9d1a2fc5cd08 | tlemaire | major reformatting of plotBatch function | Mar 14 2019 | |||
f6195a153a01 | tlemaire | cleaned up neurons docstring. defined PointNeuron.getPltVars method (possibly… | Mar 14 2019 | |||
33c52c6b04a5 | tlemaire | removed all combined gating variables from pltvars schemes. | Mar 13 2019 | |||
817387c89edd | tlemaire | implemented PointNeuron.getCurrentPltVars method to genrate a dictionary plot… | Mar 13 2019 | |||
cd145e4db3e8 | tlemaire | adapted plotSpikingMetrics for uniform y-axis scale. adapted ASTIM_filecode… | Mar 11 2019 | |||
a74f9c571b7d | tlemaire | adapted fig9.py with corrected STN model (new traces). | Mar 8 2019 | |||
990c8181cf46 | tlemaire | corrected sigmaT2_b from -10 mV to 10 mV in STN implementation. started new QSS… | Mar 7 2019 | |||
da8e0bbde997 | tlemaire | renamed currents for more clarity | Mar 6 2019 | |||
2e64aa90c325 | tlemaire | changed nomenclature of current methods from "curr..." to "i..." | Mar 5 2019 | |||
c72b7b319ed0 | tlemaire | implemented getLookupsOff function to retrieve US-OFF lookups. adapted… | Mar 5 2019 | |||
865020d8c630 | tlemaire | added RS neuron lookups with partial coverage (spatially averaged). updated… | Feb 28 2019 | |||
65c1d8649331 | tlemaire | implemented Frankenhaeuser-Huxley membrane mechanism (validated against data… | Jan 9 2019 | |||
42f56ab271e3 | tlemaire | modified plotActivationMap to plot amplitude thresholds computed from titration… | Dec 14 2018 | |||
0fcd53a68ce7 | tlemaire | added pltvars for STN neuron. added plotFRprofile function along with paper… | Dec 9 2018 | |||
0ebd7ae3b932 | tlemaire | replaced 'L' by 'Leak' in neurons nomenclature. implemented STN neuron with… | Nov 30 2018 | |||
850b05b61c5e | tlemaire | added plotFRspectrum function to actmap module. updated fig7 script, and added… | Nov 29 2018 | |||
9f827c942524 | tlemaire | added recording of computation times during lookups creation. | Nov 25 2018 | |||
2f63e4926c36 | tlemaire | improved plotRheobaseAmps function. improved arguments parsing in command line… | Nov 22 2018 | |||
8573c726b480 | tlemaire | modified getLookups2D to project along any dimensions pair in (a, f, A). | Nov 20 2018 | |||
da009206a90e | tlemaire | modified runSONIC method to use odeint solver with interpolated lookups for… | Nov 19 2018 | |||
d17615ffb4e6 | tlemaire | improved plotPhasePlane function. implemented isWithin function for loose bound… | Oct 28 2018 | |||
35b8bf12ec49 | tlemaire | plotPhaseDiagram method validated on CW stimuli | Oct 25 2018 | |||
d2b627754312 | tlemaire | implemented figtitle method for direct labeling from metadata. implemented… | Oct 25 2018 | |||
ed0d192b377b | tlemaire | added scripts to generate paper figures automatically. | Oct 2 2018 | |||
73851d6ac128 | tlemaire | updated package documentation | Sep 28 2018 | |||
7075d3ab7f91 | tlemaire | removed pltutils file | Sep 26 2018 | |||
4a67049acd76 | tlemaire | added actmap to plt module, with command line script. | Sep 26 2018 | |||
a35c13583071 | tlemaire | moved plotComp and plotBatch functions to separate files. created unique plot… | Sep 25 2018 | |||
610dc8472dcf | tlemaire | cleaned up utils module. removed log templates (now generated on the fly with… | Sep 25 2018 | |||
954e545fa6ac | tlemaire | turned intermolecular pressure test script into notebook. removed Input error… | Sep 24 2018 | |||
4d53b2a42b5e | tlemaire | moved relevant plot scripts to scripts folder. Turned analysis scripts into… | Sep 24 2018 | |||
2a334b211bff | tlemaire | major changes to the package (PointNeuron, SonicNeuron, ...) | Sep 23 2018 | |||
66e78783dda3 | tlemaire | removed use of itrpLookupsFreq by simple scipy.interp1d call | Sep 14 2018 | |||
eb527762650d | tlemaire | added sequential color mode to plotSignals. updated REDAME.md | Aug 30 2018 | |||
23060daa6da3 | tlemaire | added integer conversion for frequency checking in itrpLoouksFreq. corrected… | Aug 28 2018 | |||
50542c086cc4 | tlemaire | added plotSignals function to pltutils. | Aug 22 2018 | |||
043172721a44 | tlemaire | changed package name to PySONIC. | Aug 21 2018 |
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