How to define y_range of hl.plot.scatter

Hail Query & hailctl
1

Is there a way to define the ymin and ymax of hl.plot.scatter ?

2

You can do this on the bokeh Figure returned by scatter:

from bokeh.models import Range1d

fig = # hail scatter plot
left, right, bottom, top = 3, 9, 4, 10
fig.x_range=Range1d(left, right)
fig.y_range=Range1d(bottom, top)
show(fig)

source:

3

Hmm i tried that but it do not works:

fig = hl.plot.scatter(
        mt.col_idx,
        mt.sample_qc.r_ti_tv,
        title='Ts/Tv by sample',
        xlabel='Sample',
        ylabel='Ratio Ti/Tv',
        size=10,
        legend=False
        )
fig.y_range=Range1d(1,3)
show(fig)

Fail to execute line 12: fig.y_range=Range1d(1,3)
Traceback (most recent call last):
  File "/tmp/zeppelin_pyspark-633426455684725232.py", line 375, in <module>
    exec(code, _zcUserQueryNameSpace)
  File "<stdin>", line 12, in <module>
  File "/usr/local/lib/python3.6/site-packages/bokeh/core/has_props.py", line 288, in __setattr__
    (name, self.__class__.__name__, text, nice_join(matches)))
AttributeError: unexpected attribute 'y_range' to Column, possible attributes are align, aspect_ratio, background, children, css_classes, disabled, height, height_policy, js_event_callbacks, js_property_callbacks, margin, max_height, max_width, min_height, min_width, name, rows, sizing_mode, spacing, subscribed_events, tags, visible, width or width_policy

Seems like fig is not a Figure but a Column !

4

ack, annoying – this is actually a bokeh Column object:

try:

plt = hl.plot.scatter(
        mt.col_idx,
        mt.sample_qc.r_ti_tv,
        title='Ts/Tv by sample',
        xlabel='Sample',
        ylabel='Ratio Ti/Tv',
        size=10,
        legend=False
        )
fig = plt.children[1]
fig.y_range=Range1d(1,3)
show(plt)
5

Great ! that works.

Not easy when a function might return 2 different type of object…
is there a way to return a Bokeh Figure anyway ? that would be more conveninent.