def plot_data(self, column_pos, max_value, min_value):
for item in self.data:
gene = item[0]
sample_name = item[1]
real_value = item[2]
if self.log_graph:
value = log10(real_value)
if real_value < 1:
continue
else:
value = real_value
colour = self.legend[sample_name]['colour']
cirlce_obj = Circle(
center=(column_pos[gene], self.margin_top + self.plottable_y -
self.scale_y(value, max_value, min_value)),
r=3,
stroke_width=0.1,
stroke_linecap='round',
stroke_opacity=1,
fill=colour,
fill_opacity=0.6) # set to 0.2 if you want to show clear.
cirlce_obj.set_desc(
f"{sample_name} - {self.legend[sample_name]['category']} - {round(real_value)}"
)
self.plot.add(cirlce_obj)
def plot_data(self):
if not self.show_legend:
self.plot.add(
Line(start=(self.margin_left, self.margin_top),
end=(self.width - self.margin_right, self.margin_top),
stroke_width=1,
stroke="black"))
self.max_value = max(
[x['score'] for x in self.annotated_scores.values()])
if not self.min_value:
self.min_value = min(
[x['score'] for x in self.annotated_scores.values()])
if not self.show_legend:
self.plot.add(
Text("Fibroblasts",
insert=(self.margin_left, self.margin_top - 5),
fill="black",
font_size="15"))
self.plot.add(
Text("Cardiomyocytes",
insert=(self.width - self.margin_right - 100,
self.margin_top - 5),
fill="black",
font_size="15"))
delta = self.max_value - self.min_value
plottable = self.width - (self.margin_left + self.margin_right)
spacing = {
"Fibroblasts": INIT_GAP,
"Cardiomyocytes": INIT_GAP,
"Experimental": INIT_GAP,
"other": INIT_GAP
}
for sample, sample_details in self.annotated_scores.items():
position = self.margin_left + (
(sample_details['score'] - self.min_value) / delta * plottable)
# colour = "grey"
if "category" in sample_details:
sample_type = sample_details["category"]
if sample_type == "Fibroblasts":
colour = "green"
elif sample_type == "Cardiomyocytes":
colour = "blue"
elif sample_type == "Experimental":
colour = "red"
else:
continue
# sample_type = "other"
else:
continue
# sample_type = "other"
circle_obj = Circle(
center=(position, self.margin_top + spacing[sample_type] + 5),
r=3,
stroke_width=0.1,
stroke_linecap='round',
stroke_opacity=1,
fill=colour,
fill_opacity=0.6) # set to 0.2 if you want to show clear.
circle_obj.set_desc('{} - {} - {}'.format(
sample, sample_type, sample_details["score"] if "description"
not in sample_details else sample_details["description"]))
self.plot.add(circle_obj)
if sample_type == "other":
spacing[sample_type] += 3
else:
spacing[sample_type] += 6
