plot_membrane_pot Namespace Reference

Functions
def	cm2inch (value)
def	get_max (data)
def	get_min (data)
def	plot_membrane (ax, xs, ys, color, ymin=None, ymax=None, xmin=None, xmax=None, label="")

Variables
	parser = argparse.ArgumentParser(description='Plot membrane potential graphs')
	type
	float
	help
	str
	default
	int
	required
	True
	metavar
	args = parser.parse_args()
	fig = plt.figure(figsize=(cm2inch(12), cm2inch(6.0)))
	ax = fig.add_subplot(111)
	results = np.genfromtxt(args.file, delimiter=',', names=None)
	data = np.zeros((results.shape[0], len(results[0])))
	xs = np.array(data[:, args.tc])
	ys = np.array(data[:, args.y])
string	label = "Membrane Voltage"
	color
	ymin
	ymax
	xmin
	xmax
	results2 = np.genfromtxt(args.sp, delimiter=',', names=None)
bool	first = True
	x
	i
	linestyle
	lw
	spikes = np.zeros((results2.shape[0], len(results2[0])))
	loc
	bbox_to_anchor
	ncol
	format
	bbox_inches

Function Documentation

def plot_membrane_pot.cm2inch

(

value

)

Definition at line 58 of file plot_membrane_pot.py.

def cm2inch(value):
    return value / 2.54

def plot_membrane_pot.get_max

(

data

)

Definition at line 62 of file plot_membrane_pot.py.

def get_max(data):
    idcs = np.isfinite(data)
    return np.max(data[np.isfinite(data)])

def plot_membrane_pot.get_min

(

data

)

Definition at line 67 of file plot_membrane_pot.py.

def get_min(data):
    idcs = np.isfinite(data)
    return np.min(data[np.isfinite(data)])

def plot_membrane_pot.plot_membrane	(		ax,
			xs,
			ys,
			color,
			ymin = None,
			ymax = None,
			xmin = None,
			xmax = None,
			label = ""
	)

Plots membrane potential and spikes

ax -- plt.figure object to plot into
xs -- x values
ys -- y values
color -- color for the membrane potential graph
ymin -- Minimal y value for limits of the plot
ymax -- Maximal y value for limits of the plot
xmin -- Mnimial x value for limits of the plot
xmin -- Maximal x value for limits of the plot

Definition at line 72 of file plot_membrane_pot.py.

def plot_membrane(ax, xs, ys, color, ymin=None, ymax=None, xmin=None, xmax=None, label=""):
    """
    Plots membrane potential and spikes

    ax -- plt.figure object to plot into
    xs -- x values
    ys -- y values
    color -- color for the membrane potential graph
    ymin -- Minimal y value for limits of the plot
    ymax -- Maximal y value for limits of the plot
    xmin -- Mnimial x value for limits of the plot
    xmin -- Maximal x value for limits of the plot
    """

    ax.plot(xs, ys, color=color, lw=0.3, zorder=1, label=label)

    ax.set_xlabel("Time in ms")
    ax.set_ylabel("Voltage in mV")

    # Set the limits of y-axxis
    if (ymin is None) and (ymax is None):
        ax.autoscale_view()
    elif ymax is None:
        ax.set_ylim(bottom=ymin)
    elif ymin is None:
        ax.set_ylim(top=ymax)
    else:
        ax.set_ylim(bottom=ymin, top=ymax)

    # Set the limits of x-axxis
    if (xmin is None) and (xmax is None):
        ax.set_xlim(left=get_min(xs), right=get_max(xs))
    elif xmax is None:
        ax.set_xlim(left=xmin, right=get_max(xs))
    elif xmin is None:
        ax.set_xlim(left=get_min(xs), right=xmax)
    else:
        ax.set_xlim(left=xmin, right=xmax)

Variable Documentation

plot_membrane_pot.args = parser.parse_args()

Definition at line 46 of file plot_membrane_pot.py.

plot_membrane_pot.ax = fig.add_subplot(111)

Definition at line 113 of file plot_membrane_pot.py.

plot_membrane_pot.bbox_inches

Definition at line 167 of file plot_membrane_pot.py.

plot_membrane_pot.bbox_to_anchor

Definition at line 164 of file plot_membrane_pot.py.

plot_membrane_pot.color

Definition at line 128 of file plot_membrane_pot.py.

plot_membrane_pot.data = np.zeros((results.shape[0], len(results[0])))

Definition at line 117 of file plot_membrane_pot.py.

plot_membrane_pot.default

Definition at line 34 of file plot_membrane_pot.py.

plot_membrane_pot.fig = plt.figure(figsize=(cm2inch(12), cm2inch(6.0)))

Definition at line 112 of file plot_membrane_pot.py.

bool plot_membrane_pot.first = True

Definition at line 137 of file plot_membrane_pot.py.

plot_membrane_pot.float

Definition at line 30 of file plot_membrane_pot.py.

plot_membrane_pot.format

Definition at line 167 of file plot_membrane_pot.py.

plot_membrane_pot.help

Definition at line 30 of file plot_membrane_pot.py.

plot_membrane_pot.i

Definition at line 140 of file plot_membrane_pot.py.

plot_membrane_pot.int

Definition at line 35 of file plot_membrane_pot.py.

string plot_membrane_pot.label = "Membrane Voltage"

Definition at line 124 of file plot_membrane_pot.py.

plot_membrane_pot.linestyle

Definition at line 140 of file plot_membrane_pot.py.

plot_membrane_pot.loc

Definition at line 164 of file plot_membrane_pot.py.

plot_membrane_pot.lw

Definition at line 141 of file plot_membrane_pot.py.

plot_membrane_pot.metavar

Definition at line 43 of file plot_membrane_pot.py.

plot_membrane_pot.ncol

Definition at line 165 of file plot_membrane_pot.py.

plot_membrane_pot.parser = argparse.ArgumentParser(description='Plot membrane potential graphs')

Definition at line 27 of file plot_membrane_pot.py.

plot_membrane_pot.required

Definition at line 42 of file plot_membrane_pot.py.

plot_membrane_pot.results = np.genfromtxt(args.file, delimiter=',', names=None)

Definition at line 116 of file plot_membrane_pot.py.

plot_membrane_pot.results2 = np.genfromtxt(args.sp, delimiter=',', names=None)

Definition at line 134 of file plot_membrane_pot.py.

plot_membrane_pot.spikes = np.zeros((results2.shape[0], len(results2[0])))

Definition at line 148 of file plot_membrane_pot.py.

plot_membrane_pot.str

Definition at line 34 of file plot_membrane_pot.py.

plot_membrane_pot.True

Definition at line 42 of file plot_membrane_pot.py.

plot_membrane_pot.type

Definition at line 30 of file plot_membrane_pot.py.

plot_membrane_pot.x

Definition at line 140 of file plot_membrane_pot.py.

plot_membrane_pot.xmax

Definition at line 129 of file plot_membrane_pot.py.

plot_membrane_pot.xmin

Definition at line 129 of file plot_membrane_pot.py.

plot_membrane_pot.xs = np.array(data[:, args.tc])

Definition at line 121 of file plot_membrane_pot.py.

plot_membrane_pot.ymax

Definition at line 129 of file plot_membrane_pot.py.

plot_membrane_pot.ymin

Definition at line 128 of file plot_membrane_pot.py.

plot_membrane_pot.ys = np.array(data[:, args.y])

Definition at line 122 of file plot_membrane_pot.py.