From eda1412084e7ad8e398e9eb13e1b177928bb1ac9 Mon Sep 17 00:00:00 2001 From: devicerandom Date: Sun, 1 Nov 2009 17:39:28 +0000 Subject: [PATCH] (autopeak.py) fixed autopeak documentation --- autopeak.py | 14 ++++++++++---- 1 file changed, 10 insertions(+), 4 deletions(-) diff --git a/autopeak.py b/autopeak.py index 9176c01..a29cbd7 100644 --- a/autopeak.py +++ b/autopeak.py @@ -22,7 +22,7 @@ class autopeakCommands: (autopeak.py) Automatically performs a number of analyses on the peaks of the given curve. Currently it automatically: - - fits peaks with WLC function + - fits peaks with WLC or FJC function (depending on how the fit_function variable is set) - measures peak maximum forces with a baseline - measures slope in proximity of peak maximum Requires flatten plotmanipulator , fit.py plugin , flatfilts.py plugin with convfilt @@ -61,12 +61,15 @@ class autopeakCommands: Useful variables (to set with SET command): --- - temperature= temperature of the system for wlc fit (in K) + fit_function = type of function to use for elasticity. If "wlc" worm-like chain is used, if "fjc" freely jointed + chain is used + + temperature= temperature of the system for wlc/fjc fit (in K) auto_slope_span = number of points on which measure the slope, for slope - auto_fit_nm = number of nm to fit before the peak maximum, for WLC (if usepoints false) - auto_fit_points = number of points to fit before the peak maximum, for WLC (if usepoints true) + auto_fit_nm = number of nm to fit before the peak maximum, for WLC/FJC (if usepoints false) + auto_fit_points = number of points to fit before the peak maximum, for WLC/FJC (if usepoints true) baseline_clicks = -1: no baseline, f=0 at the contact point (whether hand-picked or automatically found) 0: automatic baseline @@ -74,6 +77,9 @@ class autopeakCommands: 2: let user click points of baseline auto_left_baseline = length in nm to use as baseline from the right point (if baseline_clicks=0 , 1) auto_right_baseline = distance in nm of peak-most baseline point from last peak (if baseline_clicks = 0) + + auto_min_p ; auto_max_p = Minimum and maximum persistence length (if using WLC) or Kuhn length (if using FJC) + outside of which the peak is automatically discarded (in nm) ''' #MACROS. -- 2.26.2