diff --git a/README.md b/README.md new file mode 100644 index 0000000..8ff6202 --- /dev/null +++ b/README.md @@ -0,0 +1,43 @@ +# NEURON model files from the paper + +M. Migliore, L. Messineo, M. Cardaci, G.F. Ayala, +Quantitative modeling of perception and production of time intervals, +*J. Neurophysiol.* 86, 2754-2760 (2001). + +Using a basic biophysical model of a timekeeping system, and experimental data on time intervals produced or estimated under different conditions, the paper shows that experimental values, variability, and distributions, can be quantitatively explained in terms of a background synaptic activity such as that generated by attention. The paper suggests a possible link between behavioral data and neural mechanisms at the single neuron level. + +The mod files include a POINT_PROCESS that generates synaptic pulses according to a Poissonian distribution, modified in such a way that its mean ISI could be drawn from a normal distribution. We used this mechanism to model intervals produced or estimated by different subjects, whereas different cognitive loads were modeled by the strength of inhibition. See the paper for more details on the underlying assumptions. + +## Under Unix systems + +Compile the mod files using the command: + +``` +nrnivmodl +``` + +and run the simulation hoc file with the command: + +``` +nrngui timing_db.hoc +``` + +This will open a window from which a simulation of 5 subjects producing a 0.5 sec interval can be run. Change "inhibition" to model different experimental conditions and cognitive loads. + +## Under Windows + +To compile the mod files use the "mknrndll DOS box" and follow on-screen instructions. +A double click on the simulation file: + +``` +timing_db.hoc +``` + +will open the simulation window. + +Questions on how to use this model should be directed to +michele.migliore@pa.ibf.cnr.it + +--- + +2025-05-27 – Standardized to Markdown. \ No newline at end of file diff --git a/README.txt b/README.txt deleted file mode 100644 index 893d30b..0000000 --- a/README.txt +++ /dev/null @@ -1,38 +0,0 @@ -NEURON model files from the paper -M. Migliore, L. Messineo, M. Cardaci, G.F. Ayala, -Quantitative modeling of perception and production of time intervals, -J.Neurophysiol. 86, 2754-2760 (2001). - -Using a basic biophysical model of a timekeeping system, -and experimental data on time intervals produced or estimated under -different conditions, the paper shows that experimental values, variability, and distributions, -can be quantitatively explained in terms of a background synaptic activity such -as that generated by attention. The paper suggests a possible -link between behavioral data and neural mechanisms at the single neuron level. - -The mod files include a POINT_PROCESS that generates synaptic pulses -according to a Poissonian distribution, modified in such a way that its mean ISI -could be drawn from a normal distribution. -We used this mechanism to model intervals produced or estimated by different subjects, -whereas different cognitive loads were modeled by the strength of inhibition. -See the paper for more details on the underlying assumptions. - -Under unix systems: -compile the mod files using the command -nrnivmodl -and run the simulation hoc file with the command -nrngui timing_db.hoc - -This will open a window from which a simulation of 5 subjects producing a 0.5 sec interval -can be run. Change "inhibition" to model different experimental conditions and cognitive loads. - -Under Windows: -to compile the mod files use the "mknrndll DOS box" and -follow on-screen instructions. -A double click on the simulation file -timing_db.hoc -will open the simulation window. - -Questions on how to use this model should be directed to -michele.migliore@pa.ibf.cnr.it -