History Graph
History Graph
| Commit | Author | Details | Committed | |||
|---|---|---|---|---|---|---|
| 043172721a44 | tlemaire | changed package name to PySONIC. | Aug 21 2018 | |||
| f643971bb42f | tlemaire | replaced runMech function by MechWorker class, added multiprocessing option to… | Jul 23 2018 | |||
| eaed73930e7c | tlemaire | separated mod files. corrected variables outputing in runNEURON. corrected Vm… | Jul 13 2018 | |||
| 3b9d8b293e8a | tlemaire | minor modifications to plotEffVars, rescale and test_intermolecular_pressure.py | Jun 18 2018 | |||
| bd1e86dc1591 | tlemaire | added automatic y-scaling of effective variables in plotEffVars. | May 25 2018 | |||
| 00baa42adf67 | tlemaire | renamed plotEffCoeffs to plotEffVariables with lots of improvements. | May 25 2018 | |||
| 7d33ab6ec1f9 | tlemaire | added script to test intermoleulcar pressure approximation. | May 25 2018 | |||
| e238a7caa389 | tlemaire | minor modifications to plotActivationMap function, added plotTraces function… | May 22 2018 | |||
| 532e76eaa491 | tlemaire | minor corrections to plotComp and si_format. | May 15 2018 | |||
| ddd04f71a3b3 | tlemaire | adapted plot settings (font and dimensions) for paper figures. | May 11 2018 | |||
| 383a6cb2fc75 | tlemaire | added method to find neuron-specific rheobase US amplitudes (findRheobaseAmps)… | May 8 2018 | |||
| 718541c73181 | tlemaire | added plotDualMaxMap to pltutils. | May 6 2018 | |||
| 75b8e9964108 | tlemaire | added plotActivationMap to pltutils. | May 4 2018 | |||
| ea14e67aae6f | tlemaire | solved minor issue in getPatchesLoc. replaced Rectangle by axvspan instances… | May 3 2018 | |||
| 419fdbc72f8c | tlemaire | replaced numpy.vectorize by explicit definition of vectorized BLS methods. | May 2 2018 | |||
| f7bc3b340b2d | tlemaire | vectorized relevant functions of the BilayerSonophore class | May 2 2018 | |||
| 59edb2753a52 | tlemaire | added computeMeshEdges function to utils module. | May 2 2018 | |||
| 27332b793c2a | tlemaire | changed PRF and DC format in file naming (simutils output and pltutils input) | Apr 14 2018 | |||
| a5aaa17fbd90 | tlemaire | removed dependency on colorlover in plotComp | Apr 14 2018 | |||
| d5e56c2f9c40 | tlemaire | replaced detectSpikes by the more robust findPeaks. added a plot_spikes script… | Apr 4 2018 | |||
| 6d97721d9c51 | tlemaire | solved rendering issue with plotComp. Implemented and tested a robust peak… | Apr 3 2018 | |||
| cf2846af1ead | tlemaire | added better inset handling in plotComp | Mar 30 2018 | |||
| 1ac82339eaf3 | tlemaire | modified plotComp to take only 1 input variable and added option to plot inset | Mar 30 2018 | |||
| 377594fb12b0 | tlemaire | added prominence threshold constant for spike detection. added skeleton for IB… | Mar 29 2018 | |||
| c916dd9c8f25 | tlemaire | added method to extract compuation times in utils module | Mar 27 2018 | |||
| e59db772ab09 | tlemaire | minor improvements to pltutils module | Mar 22 2018 | |||
| 80b620b50b12 | tlemaire | removed italic for latex style labelling in plotComp | Mar 22 2018 | |||
| d7f0d2a86ee2 | tlemaire | added option to change linestyle of legend handles (dashed -> straight) | Mar 22 2018 | |||
| 3bee78ffb4bc | tlemaire | added extra options to plotComp (custom ticks, black legend with colored plots) | Mar 21 2018 | |||
| 1c8f0234e7e7 | tlemaire | changes to plotComp function allowing to customize linestyles, colors and… | Mar 19 2018 | |||
| 4ffaa73494ea | tlemaire | introduced custom defined InputError exceptions (instead of assert statements)… | Mar 15 2018 | |||
| 41e27b5ece2e | tlemaire | tested and validated plotting with pandas dataframes. | Mar 13 2018 | |||
| 1edd575f6465 | Theo Lemaire | replaced DF by DC, and added pandas dataframes to store and retrieve simulation… | Mar 13 2018 | |||
| edd5594d9646 | Theo Lemaire | replaced channels by neurons | Mar 12 2018 | |||
| c59a8267c97e | tlemaire | corrected LeechP implementation using dynamic Nernst potentials for Sodium and… | Jan 9 2018 | |||
| 33ee63af70aa | tlemaire | Lots of corrections and improvements to the LeechP model implementation. E-STIM… | Dec 12 2017 | |||
| 094fd25223f4 | tlemaire | added LeechPressure to channels init. added leechP variables to pltvars. tested… | Dec 1 2017 | |||
| 1bb50e8f0025 | tlemaire | validated effective method for LeechT neuron, added that neuron to test_values. | Nov 27 2017 | |||
| c9dad3d35684 | tlemaire | corrected code for LeechT neuron, and validated it on electrical stimuli | Nov 22 2017 | |||
| 6be1756dda64 | tlemaire | added biomech and biophys parameters directly as BilayerSonophore class… | Sep 12 2017 | |||
| c67c8c39a93b | tlemaire | added input pltvars checking to plot functions | Sep 10 2017 | |||
| 43647159e654 | tlemaire | replaced print statements with logging statements in internal modules | Sep 10 2017 | |||
| 14d95d317eeb | tlemaire | replaced neurons object lists by neurons name list in batch functions input | Sep 6 2017 | |||
| b0a231289d69 | tlemaire | added standardized plotEffCoeffs function to pltutils | Sep 2 2017 | |||
| 08165e6a06f3 | tlemaire | replaced eval statements from plotGatingKinetics & plotRateConstants by getattr… | Sep 1 2017 | |||
| 4c66e98d971e | tlemaire | added standardized plotRateConstants method | Sep 1 2017 | |||
| 3f5921510ae9 | tlemaire | added plotGatingKinetics method to plot the steady-sate and time constant… | Sep 1 2017 | |||
| e2ff032a6759 | tlemaire | added option to specify labels in plotComp | Sep 1 2017 | |||
| c5cad185b222 | tlemaire | added getNeuronsDict function to utils | Aug 29 2017 | |||
| 06127af4b669 | tlemaire | included default plotting scheme inside neuron classes definition. Modified… | Aug 25 2017 | |||
| c30d03edb7cc | tlemaire | adapted plotComp to deal with pulsed ESTIM outputs and MECH outputs. corrected… | Aug 25 2017 | |||
| 0a89dde7f847 | tlemaire | implemented runMechBatch function. adapted plotBatch function to deal with MECH… | Aug 25 2017 | |||
| c9053e689690 | tlemaire | added titrateEStim and titrateEStimBatch functions | Aug 25 2017 | |||
| 3c218a52595b | tlemaire | Added pulsed stimuli handling to SolverElec. Implemented moved titration… | Aug 25 2017 | |||
| 788e6d1c95b2 | tlemaire | added smart labels to plotComp, smart title to plotBatch | Aug 24 2017 | |||
| b139db9e82d1 | tlemaire | added LeechT variables to workflow | Aug 24 2017 | |||
| 3e6f232a2a2e | tlemaire | debugging of plot functions | Aug 24 2017 | |||
| 2c7de2047898 | tlemaire | introduced standardized workflow for both E-STIM and A-STIM simulations and… | Aug 24 2017 | |||
| af10a48546b7 | tlemaire | created plotting module inside package, with plotComp and plotBatch functions | Aug 23 2017 |
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