From 0836a12535359bb2cffd20b2f12d8fc0ed29ce8f Mon Sep 17 00:00:00 2001 From: EnfxcFCb6 Date: Fri, 30 May 2025 16:41:07 -0400 Subject: [PATCH 1/2] Standardized README to Markdown format --- readme.html => README.md | 52 +++++++++++++++++++++------------------- 1 file changed, 28 insertions(+), 24 deletions(-) rename readme.html => README.md (55%) diff --git a/readme.html b/README.md similarity index 55% rename from readme.html rename to README.md index f1bf232..f3ff971 100644 --- a/readme.html +++ b/README.md @@ -1,13 +1,12 @@ -
 This code reproduces the model published in Figure 8 of:
 
-Chaudhuri, D., Issa, J.B., and Yue, D.T. (2007). “Elementary
-Mechanisms Producing Facilitation of Cav2.1 (P/Q-type) Channels,”
-J. Gen. Physiology 129, 385-401.
+Chaudhuri, D., Issa, J.B., and Yue, D.T. (2007). “Elementary
+Mechanisms Producing Facilitation of Cav2.1 (P/Q-type) Channels,”
+*J. Gen. Physiology* 129, 385-401.
 
-The model is run in Matlab. Run sc_gui.m to open the GUI from which
+The model is run in Matlab. Run `sc_gui.m` to open the GUI from which
 you can enter model parameter values and simulate results. The other
-two m-files, setup_sc.m and camodel.m, are used to do the
+two m-files, `setup_sc.m` and `camodel.m`, are used to do the
 simulations. Euler integration is used to solve the differential
 equations numerically.
 
@@ -24,32 +23,37 @@
 The other text files contained are used to set the time axis for each
 of the different measures.
 
-Abbreviations:
-
-po = channel open probability
-poo = channel open probability with a delay t following a known first
-      opening transition
-fl = first latency distribution (probability that first opening
-     occurred before time t)
-ot = mean open time for a single channel opening
-C2 fraction = fraction of channels that start in the 2nd closed state
-              for Ca++ as the charge carrier
-hi po fraction = fraction of channels that start in the facilitated
-                 state for EFa Ca++ with no prepulse
-Ba C2 fraction = fraction of channels that start in the 2nd closed
-                 state for Ba++ as the charge carrier
+### Abbreviations:
+
+- **po** = channel open probability
+- **poo** = channel open probability with a delay t following a known first
+  opening transition
+- **fl** = first latency distribution (probability that first opening
+  occurred before time t)
+- **ot** = mean open time for a single channel opening
+- **C2 fraction** = fraction of channels that start in the 2nd closed state
+  for Ca++ as the charge carrier
+- **hi po fraction** = fraction of channels that start in the facilitated
+  state for EFa Ca++ with no prepulse
+- **Ba C2 fraction** = fraction of channels that start in the 2nd closed
+  state for Ba++ as the charge carrier
 
 Correction factors are used to scale the results to our data. These
 values correct for blank sweeps in the data. They would all have a
 value of 1 if there were no blank sweeps.
+
 ----
+
 Running the model (in matlab command window type
-run './sc_gui'
-after cd'ing to the directory the files expanded into) (just press
+`run './sc_gui'`
+after `cd`'ing to the directory the files expanded into) (just press
 the run button) should produce a graph similar to:
 
-screenshot image
+![screenshot image](./screenshot.jpg)
 
 and the parameters in the GUI can be adjusted to produce graphs
 similar to figs 3-6, 8.
-
+ +--- + +2025-05-30: Standardized to Markdown, and formatted description, headings, and lists. \ No newline at end of file From 42b3bcaf0f54fd33e4ce24ac5316d50c8ee35c46 Mon Sep 17 00:00:00 2001 From: rsakai Date: Fri, 30 May 2025 17:03:25 -0400 Subject: [PATCH 2/2] Update README.md --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index f3ff971..d0b0d87 100644 --- a/README.md +++ b/README.md @@ -56,4 +56,4 @@ similar to figs 3-6, 8. --- -2025-05-30: Standardized to Markdown, and formatted description, headings, and lists. \ No newline at end of file +2025-05-30: Standardized to Markdown