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Improved STA figure

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Jan Benda 2015-11-24 17:17:58 +01:00
parent 55495d2d71
commit b1fdc18111
5 changed files with 39 additions and 27 deletions
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4
bootstrap/lecture/bootstrap-chapter.tex
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@ -5,8 +5,8 @@
\lstset{inputpath=../code} \lstset{inputpath=../code}
\graphicspath{{figures/}} \graphicspath{{figures/}}
\setcounter{page}{} \setcounter{page}{81}
\setcounter{chapter}{-1} \setcounter{chapter}{4}
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4
likelihood/lecture/likelihood-chapter.tex
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@ -5,8 +5,8 @@
\lstset{inputpath=../code} \lstset{inputpath=../code}
\graphicspath{{figures/}} \graphicspath{{figures/}}
\setcounter{page}{} \setcounter{page}{101}
\setcounter{chapter}{-1} \setcounter{chapter}{6}
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2
pointprocesses/lecture/pointprocesses.tex
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@ -503,5 +503,3 @@ die Zellantwort mit dem STA verfaltet.
genauso gro{\ss} ist wie der Originalstimulus aus der Datei genauso gro{\ss} ist wie der Originalstimulus aus der Datei
\file{sta\_data.mat}. \file{sta\_data.mat}.
\end{exercise} \end{exercise}

52
pointprocesses/lecture/sta.py
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@ -38,18 +38,22 @@ def reconstruct_stimulus(spike_times, sta, stimulus, t_max=30., dt=1e-4):
def plot_results(sta_time, st_average, stim_time, s_est, stimulus, duration, dt): def plot_results(sta_time, st_average, stim_time, s_est, stimulus, duration, dt):
plt.xkcd()
sta_ax = plt.subplot2grid((1, 3), (0, 0), rowspan=1, colspan=1) sta_ax = plt.subplot2grid((1, 3), (0, 0), rowspan=1, colspan=1)
stim_ax = plt.subplot2grid((1, 3), (0, 1), rowspan=1, colspan=2) stim_ax = plt.subplot2grid((1, 3), (0, 1), rowspan=1, colspan=2)
fig = plt.gcf() fig = plt.gcf()
fig.set_size_inches(15, 5) fig.set_size_inches(8, 3)
fig.subplots_adjust(left=0.08, bottom=0.15, top=0.9, right=0.975) fig.subplots_adjust(left=0.08, bottom=0.15, top=0.9, right=0.975)
fig.set_facecolor("white") fig.set_facecolor("white")
sta_ax.plot(sta_time * 1000, st_average, color="dodgerblue", lw=2.) sta_ax.plot(sta_time * 1000, st_average, color="#FF9900", lw=2.)
sta_ax.set_xlabel("time [ms]", fontsize=20) sta_ax.set_xlabel("Time (ms)")
sta_ax.set_ylabel("stimulus", fontsize=20) sta_ax.set_ylabel("Stimulus")
sta_ax.set_xlim([-50, 50]) sta_ax.set_xlim(-40, 20)
sta_ax.set_xticks(np.arange(-40, 21, 20))
sta_ax.set_ylim(-0.1, 0.2)
sta_ax.set_yticks(np.arange(-0.1, 0.21, 0.1))
# sta_ax.xaxis.grid('off') # sta_ax.xaxis.grid('off')
sta_ax.spines["right"].set_visible(False) sta_ax.spines["right"].set_visible(False)
sta_ax.spines["top"].set_visible(False) sta_ax.spines["top"].set_visible(False)
@ -57,32 +61,42 @@ def plot_results(sta_time, st_average, stim_time, s_est, stimulus, duration, dt)
sta_ax.xaxis.set_ticks_position('bottom') sta_ax.xaxis.set_ticks_position('bottom')
sta_ax.spines["bottom"].set_linewidth(2.0) sta_ax.spines["bottom"].set_linewidth(2.0)
sta_ax.spines["left"].set_linewidth(2.0) sta_ax.spines["left"].set_linewidth(2.0)
sta_ax.tick_params(direction="out", width=2.0, labelsize=18) sta_ax.tick_params(direction="out", width=2.0)
ylim = sta_ax.get_ylim() ylim = sta_ax.get_ylim()
xlim = sta_ax.get_xlim() xlim = sta_ax.get_xlim()
sta_ax.plot(list(xlim), [0., 0.], zorder=1, color='darkgray', ls='--', lw=0.75) sta_ax.plot(list(xlim), [0., 0.], zorder=1, color='darkgray', ls='--', lw=1)
sta_ax.plot([0., 0.], list(ylim), zorder=1, color='darkgray', ls='--', lw=0.75) sta_ax.plot([0., 0.], list(ylim), zorder=1, color='darkgray', ls='--', lw=1)
sta_ax.set_xlim(list(xlim)) sta_ax.set_xlim(list(xlim))
sta_ax.set_ylim(list(ylim)) sta_ax.set_ylim(list(ylim))
sta_ax.text(-0.25, 1.04, "A", transform=sta_ax.transAxes, size=24) sta_ax.annotate('Time of\nspike',
xy=(0, 0.18), xycoords='data',
xytext=(-35, 0.19), textcoords='data', ha='left',
arrowprops=dict(arrowstyle="->", relpos=(1.0,0.5),
connectionstyle="angle3,angleA=0,angleB=-70") )
sta_ax.annotate('STA',
xy=(-10, 0.05), xycoords='data',
xytext=(-33, 0.09), textcoords='data', ha='left',
arrowprops=dict(arrowstyle="->", relpos=(1.0,0.0),
connectionstyle="angle3,angleA=60,angleB=-40") )
#sta_ax.text(-0.25, 1.04, "A", transform=sta_ax.transAxes, size=24)
stim_ax.plot(stim_time * 1000, stimulus[:,1], label='stimulus', color='dodgerblue', lw=2.) stim_ax.plot(stim_time * 1000, stimulus[:,1], label='stimulus', color='#0000FF', lw=2.)
stim_ax.plot(stim_time * 1000, s_est, label='reconstruction', color='red', lw=2) stim_ax.plot(stim_time * 1000, s_est, label='reconstruction', color='#FF9900', lw=2)
stim_ax.set_xlabel('time[ms]', fontsize=20) stim_ax.set_xlabel('Time (ms)')
stim_ax.set_xlim([0.0, 250]) stim_ax.set_xlim(0.0, 200)
stim_ax.set_ylim([-1., 1.]) stim_ax.set_ylim([-1., 1.])
stim_ax.legend() stim_ax.legend(loc=(0.3, 0.85), frameon=False, fontsize=12)
stim_ax.plot([0.0, 250], [0., 0.], color="darkgray", lw=0.75, ls='--', zorder=1) stim_ax.plot([0.0, 250], [0., 0.], color="darkgray", lw=1, ls='--', zorder=1)
stim_ax.spines["right"].set_visible(False) stim_ax.spines["right"].set_visible(False)
stim_ax.spines["top"].set_visible(False) stim_ax.spines["top"].set_visible(False)
stim_ax.yaxis.set_ticks_position('left') stim_ax.yaxis.set_ticks_position('left')
stim_ax.xaxis.set_ticks_position('bottom') stim_ax.xaxis.set_ticks_position('bottom')
stim_ax.spines["bottom"].set_linewidth(2.0) stim_ax.spines["bottom"].set_linewidth(2.0)
stim_ax.spines["left"].set_linewidth(2.0) stim_ax.spines["left"].set_linewidth(2.0)
stim_ax.tick_params(direction="out", width=2.0, labelsize=18) stim_ax.tick_params(direction="out", width=2.0)
stim_ax.text(-0.1, 1.04, "B", transform=stim_ax.transAxes, size=24) #stim_ax.text(-0.1, 1.04, "B", transform=stim_ax.transAxes, size=24)
fig.tight_layout()
fig.savefig("sta.pdf") fig.savefig("sta.pdf")
plt.close() plt.close()

4
regression/lecture/regression-chapter.tex
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@ -5,8 +5,8 @@
\lstset{inputpath=../code} \lstset{inputpath=../code}
\graphicspath{{figures/}} \graphicspath{{figures/}}
\setcounter{page}{} \setcounter{page}{89}
\setcounter{chapter}{-1} \setcounter{chapter}{5}
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