def save_unit_spike_trains(units, stimulus_list, c_add_unit_figures, c_add_retina_figure,
by='angle'):
print("Creating bar unit spike trains")
if by == 'angle':
get_solid = glia.compose(
glia.f_create_experiments(stimulus_list),
glia.f_has_stimulus_type(["BAR"]),
partial(sorted, key=lambda e: e["stimulus"]["angle"]),
)
nplots = get_nplots(stimulus_list,by)
response = glia.apply_pipeline(get_solid,units)
result = glia.plot_units(plot_spike_trains_by_angle,response, nplots=nplots,
ncols=3,ax_xsize=10, ax_ysize=5,
figure_title="Unit spike train by BAR angle")
elif by == 'width':
get_solid = glia.compose(
glia.f_create_experiments(stimulus_list),
glia.f_has_stimulus_type(["BAR"]),
partial(sorted, key=lambda e: e["stimulus"]["width"]),
)
nplots = get_nplots(stimulus_list,by)
response = glia.apply_pipeline(get_solid,units)
result = glia.plot_units(plot_spike_trains_by_trial,response, nplots=nplots,
ncols=3,ax_xsize=10, ax_ysize=5,
figure_title="Unit spike train by BAR angle")
# nplots = len(speed_widths)
c_add_unit_figures(result)
glia.close_figs([fig for the_id,fig in result])
def save_unit_spike_trains(units, stimulus_list, c_add_unit_figures, c_add_retina_figure, prepend, append):
print("Creating solid unit spike trains")
get_solid = glia.compose(
glia.f_create_experiments(stimulus_list,prepend_start_time=prepend,append_lifespan=append),
glia.f_has_stimulus_type(["SOLID"]),
)
response = glia.apply_pipeline(get_solid,units)
plot_function = partial(plot_spike_trains,prepend_start_time=prepend,append_lifespan=append)
result = glia.plot_units(plot_function,response,ncols=1,ax_xsize=10, ax_ysize=5)
c_add_unit_figures(result)
glia.close_figs([fig for the_id,fig in result])
def save_unit_spike_trains(units, stimulus_list, c_unit_fig, c_add_retina_figure, prepend, append):
print("Creating solid unit spike trains")
get_solid = glia.compose(
glia.f_create_experiments(stimulus_list,prepend_start_time=prepend,append_lifespan=append),
glia.f_has_stimulus_type(["SOLID"]),
)
response = glia.apply_pipeline(get_solid,units, progress=True)
plot_function = partial(plot_spike_trains,prepend_start_time=prepend,append_lifespan=append)
result = glia.plot_units(plot_function,response,ncols=1,ax_xsize=10, ax_ysize=5)
c_unit_fig(result)
glia.close_figs([fig for the_id,fig in result])
def save_unit_psth(units, stimulus_list, c_add_unit_figures, c_add_retina_figure, prepend, append):
print("Creating solid unit PSTH")
get_psth = glia.compose(
glia.f_create_experiments(stimulus_list,prepend_start_time=prepend,append_lifespan=append),
glia.f_has_stimulus_type(["SOLID"]),
glia.f_group_by_stimulus(),
glia.concatenate_by_stimulus
)
psth = glia.apply_pipeline(get_psth,units)
plot_function = partial(plot_psth,prepend_start_time=prepend,append_lifespan=append)
result = glia.plot_units(partial(plot_function,bin_width=0.01),psth,ax_xsize=10, ax_ysize=5)
c_add_unit_figures(result)
glia.close_figs([fig for the_id,fig in result])
def save_unit_psth(units, stimulus_list, c_unit_fig, c_add_retina_figure, prepend, append):
print("Creating solid unit PSTH")
get_psth = glia.compose(
glia.f_create_experiments(stimulus_list,prepend_start_time=prepend,append_lifespan=append),
glia.f_has_stimulus_type(["SOLID"]),
glia.f_group_by_stimulus(),
glia.concatenate_by_stimulus
)
psth = glia.apply_pipeline(get_psth,units, progress=True)
plot_function = partial(plot_psth,prepend_start_time=prepend,append_lifespan=append)
result = glia.plot_units(partial(plot_function,bin_width=0.01),psth,ax_xsize=10, ax_ysize=5)
c_unit_fig(result)
glia.close_figs([fig for the_id,fig in result])
def save_unit_response_by_angle(units, stimulus_list, c_unit_fig,
c_add_retina_figure):
print("Calculating DSI & OSI")
bar_firing_rate, bar_dsi, bar_osi = get_fr_dsi_osi(units, stimulus_list)
print("plotting unit response by angle")
analytics = glia.by_speed_width_then_angle(
glia.get_unit(bar_firing_rate)[1])
nplots = len(list(analytics.keys()))
del analytics
if nplots > 1:
ncols = 3
else:
ncols = 1
result = glia.plot_units(plot_unit_response_by_angle,
bar_firing_rate,
bar_dsi,
bar_osi,
nplots=nplots,
subplot_kw={"projection": "polar"},
ax_xsize=4,
ax_ysize=5,
ncols=3)
c_unit_fig(result)
glia.close_figs([fig for the_id, fig in result])
print("plotting unit DSI/OSI table")
result = glia.plot_units(plot_unit_dsi_osi_table,
bar_firing_rate,
bar_dsi,
bar_osi,
ax_xsize=6,
ax_ysize=4)
c_unit_fig(result)
glia.close_figs([fig for the_id, fig in result])
fig_population, ax = plt.subplots(2, 1)
print("plotting population by DSI & OSI")
plot_population_dsi_osi(ax, (bar_dsi, bar_osi))
c_add_retina_figure(fig_population)
plt.close(fig_population)
def save_unit_spike_trains(units,
stimulus_list,
c_add_unit_figures,
c_add_retina_figure,
by='angle'):
print("Creating bar unit spike trains")
if by == 'angle':
get_solid = glia.compose(
glia.f_create_experiments(stimulus_list),
glia.f_has_stimulus_type(["BAR"]),
partial(sorted, key=lambda e: e["stimulus"]["angle"]),
)
nplots = get_nplots(stimulus_list, by)
response = glia.apply_pipeline(get_solid, units, progress=True)
result = glia.plot_units(plot_spike_trains_by_angle,
response,
nplots=nplots,
ncols=3,
ax_xsize=10,
ax_ysize=5,
figure_title="Unit spike train by BAR angle")
elif by == 'width':
get_solid = glia.compose(
glia.f_create_experiments(stimulus_list),
glia.f_has_stimulus_type(["BAR"]),
partial(sorted, key=lambda e: e["stimulus"]["width"]),
)
nplots = get_nplots(stimulus_list, by)
response = glia.apply_pipeline(get_solid, units, progress=True)
result = glia.plot_units(plot_spike_trains_by_trial,
response,
nplots=nplots,
ncols=3,
ax_xsize=10,
ax_ysize=5,
figure_title="Unit spike train by BAR angle")
# nplots = len(speed_widths)
c_add_unit_figures(result)
glia.close_figs([fig for the_id, fig in result])
def save_unit_response_by_angle(units, stimulus_list, c_add_unit_figures, c_add_retina_figure):
print("Calculating DSI & OSI")
bar_firing_rate, bar_dsi, bar_osi = get_fr_dsi_osi(units, stimulus_list)
print("plotting unit response by angle")
analytics = glia.by_speed_width_then_angle(glia.get_unit(bar_firing_rate)[1])
nplots = len(list(analytics.keys()))
del analytics
if nplots>1:
ncols=3
else:
ncols=1
result = glia.plot_units(plot_unit_response_by_angle,
bar_firing_rate,bar_dsi,bar_osi,
nplots=nplots, subplot_kw={"projection": "polar"},
ax_xsize=4, ax_ysize=5, ncols=3)
c_add_unit_figures(result)
glia.close_figs([fig for the_id,fig in result])
print("plotting unit DSI/OSI table")
result = glia.plot_units(plot_unit_dsi_osi_table,
bar_firing_rate,bar_dsi,bar_osi,
ax_xsize=6, ax_ysize=4)
c_add_unit_figures(result)
glia.close_figs([fig for the_id,fig in result])
fig_population,ax = plt.subplots(2,1)
print("plotting population by DSI & OSI")
plot_population_dsi_osi(ax, (bar_dsi, bar_osi))
c_add_retina_figure(fig_population)
plt.close(fig_population)
def save_unit_spike_trains(units,
stimulus_list,
c_unit_fig,
c_add_retina_figure,
width=None,
height=None):
print("Creating grating unit spike trains")
get_solid = glia.compose(glia.f_create_experiments(stimulus_list),
glia.f_has_stimulus_type(["GRATING"]),
glia.f_split_by_wavelength())
response = glia.apply_pipeline(get_solid, units, progress=True)
nplots = len(glia.get_unit(response)[1])
result = glia.plot_units(
plot_spike_trains,
response,
nplots=nplots,
ncols=3,
ax_xsize=10,
ax_ysize=5,
figure_title="Unit spike train by GRATING waveperiod")
c_unit_fig(result)
glia.close_figs([fig for the_id, fig in result])
def cover(units, stimulus_list, metadata, c_unit_fig, c_retina_fig):
"Add cover page."
data = {k: v.name for k, v in units.items()}
result = glia.plot_units(create_cover_page, data, ax_xsize=10, ax_ysize=5)
c_unit_fig(result)
glia.close_figs([fig for the_id, fig in result])
def cover(units, stimulus_list, c_add_unit_figures, c_add_retina_figureand):
"Add cover page."
data = {k:v.name for k,v in units.items()}
result = glia.plot_units(create_cover_page,data,ax_xsize=10, ax_ysize=5)
c_add_unit_figures(result)
glia.close_figs([fig for the_id,fig in result])