SCFit takes an idealized list of openings and closings from single channel recordings and fits rates in a single channel gating mechanism using an exact correction for missed events. The application is based largely on the work of Hawkes, Jalali, and Colquhoun (1990), Hawkes and Jalali (1992), and Hawkes, Jalali, and Colquhoun (1992).

SCFit is primarily a collection of Matlab functions and scripts that do the following:

1. Load idealized data from an SCN file generated by the SCAN idealization program or by QuB
2. Pre-process the data
   • impose a resolution
   • concatenate contiguous openings
   • find a critical shut time to split the data into bursts of openings
3. Load a channel gating model
   • fix rates to obey microscopic reversibility
4. Fit the rates in the gating mechanism using the maximum likelihood method
   • an exact correction for missed events due to the resolution is used to calculate the likelihood

Standalone App

In addition to the Matlab functions, there is a standalone GUI application, which packages all the data preprocessing and model loading steps.

Download the latest version 0.3

Installation

Unzip the zip file and run SCFitInstaller_v0.3_web.exe, which will install the Matlab runtime and the app.

References

1. Hawkes AG, Jalali A, Colquhoun D (1990) The Distributions of the Apparent Open Times and Shut Times in a Single Channel Record when Brief Events Cannot Be Detected. Philosophical Transactions: Physical Sciences and Engineering 332:511–538
2. Jalali A, Hawkes AG (1992) Generalised Eigenproblems Arising in Aggregated Markov Processes Allowing for Time Interval Omission. Advances in Applied Probability 24:302–321
3. Hawkes AG, Jalali A, Colquhoun D (1992) Asymptotic Distributions of Apparent Open Times and Shut Times in a Single Channel Record Allowing for the Omission of Brief Events. Philosophical Transactions: Biological Sciences 337:383–404