def draw(self, axes, feature, bbox, loc, style_param):
x = bbox.x0
y = bbox.y0 + bbox.height / 2
dx = bbox.width
dy = 0
if loc.defect & seq.Location.Defect.MISS_RIGHT:
# If the feature extends into the prevoius or next line
# do not draw an arrow head
draw_head = False
else:
draw_head = True
axes.add_patch(
biotite.AdaptiveFancyArrow(
x,
y,
dx,
dy,
self._tail_width * bbox.height,
self._head_width * bbox.height,
# Create head with 90 degrees tip
# -> head width/length ratio = 1/2
head_ratio=0.5,
draw_head=draw_head,
color=biotite.colors["orange"],
linewidth=0))
def draw_arrow(ax, feature, loc):
x = loc.first
dx = loc.last - loc.first + 1
if loc.strand == seq.Location.Strand.FORWARD:
x = loc.first
dx = loc.last - loc.first + 1
else:
x = loc.last
dx = loc.first - loc.last + 1
# Create head with 90 degrees tip -> head width/length ratio = 1/2
ax.add_patch(
biotite.AdaptiveFancyArrow(x,
0.5,
dx,
0,
tail_width=0.4,
head_width=0.7,
head_ratio=0.5,
draw_head=True,
color=COLORS[feature.key],
linewidth=0))
label = feature.qual.get("gene")
if label is not None:
ax.text(x + dx / 2,
0.5,
label,
color="black",
ha="center",
va="center",
size=8)
def draw(self, axes, feature, bbox, loc, style_param):
"""
The drawing function that create helix visualization
Args:
axes, feature, bbox, loc, style_param : matplotlib parameters to create the plot that will be gave by ProteinPlotter class
"""
x = bbox.x0
y = bbox.y0 + bbox.height / 2
dx = bbox.width
dy = 0
if loc.defect & seq.Location.Defect.MISS_RIGHT:
# If the feature extends into the prevoius or next line
# do not draw an arrow head
draw_head = False
else:
draw_head = True
axes.add_patch(
biotite.AdaptiveFancyArrow(
x,
y,
dx,
dy,
self._tail_width * bbox.height,
self._head_width * bbox.height,
# Create head with 90 degrees tip
# -> head width/length ratio = 1/2
head_ratio=0.5,
draw_head=draw_head,
color=biotite.colors["orange"],
linewidth=0))