def testScatterplot(self):
flow.ScatterplotView(xchannel="V2-A", ychannel="Y2-A",
huefacet="Dox").plot(self.ex)
flow.ScatterplotView(xchannel="V2-A",
ychannel="Y2-A",
xscale="log",
yscale="log",
huefacet="Dox").plot(self.ex)
flow.ScatterplotView(xchannel="V2-A",
ychannel="Y2-A",
xscale="logicle",
yscale="logicle",
huefacet="Dox").plot(self.ex)
util.expand_class_attributes(DensityView)
util.expand_method_parameters(DensityView, DensityView.plot)
if __name__ == '__main__':
import cytoflow as flow
tube1 = flow.Tube(file='../../cytoflow/tests/data/Plate01/RFP_Well_A3.fcs',
conditions={"Dox": 10.0})
tube2 = flow.Tube(file='../../cytoflow/tests/data/Plate01/CFP_Well_A4.fcs',
conditions={"Dox": 1.0})
ex = flow.ImportOp(conditions={"Dox": "float"}, tubes=[tube1, tube2])
thresh = flow.ThresholdOp()
thresh.name = "Y2-A+"
thresh.channel = 'Y2-A'
thresh.threshold = 200.0
ex2 = thresh.apply(ex)
scatter = flow.ScatterplotView()
scatter.name = "Scatter"
scatter.xchannel = "FSC-A"
scatter.ychannel = "SSC-A"
scatter.xscale = "logicle"
scatter.yscale = "logicle"
scatter.huefacet = 'Dox'
plt.ioff()
scatter.plot(ex2)
plt.show()
def setUp(self):
ImportedDataTest.setUp(self)
self.view = flow.ScatterplotView(xchannel = "B1-A",
ychannel = "Y2-A")
def setUp(self):
super().setUp()
self.view = flow.ScatterplotView(xchannel="B1-A", ychannel="Y2-A")
def testScatterplot(self):
import numpy as np
import matplotlib.pyplot as plt
flow.ScatterplotView(xchannel="V2-A",
ychannel="Y2-A",
xscale="linear",
yscale="linear",
huefacet="Dox").plot(self.ex)
ax = plt.gca()
np.testing.assert_array_equal(
ax.get_xticks(),
np.array([-500., 0., 500., 1000., 1500., 2000., 2500., 3000.]),
)
np.testing.assert_array_equal(
ax.get_yticks(),
np.array([
-10000., 0., 10000., 20000., 30000., 40000., 50000., 60000.,
70000.
]),
)
flow.ScatterplotView(xchannel="V2-A",
ychannel="Y2-A",
xscale="log",
yscale="log",
huefacet="Dox").plot(self.ex)
ax = plt.gca()
np.testing.assert_array_equal(
ax.get_xticks(),
np.array([1.e-2, 1.e-1, 1., 1.e1, 1.e2, 1.e3, 1.e4, 1.e5]),
)
np.testing.assert_array_equal(
ax.get_yticks(),
np.array([1.e-2, 1.e-1, 1., 1.e1, 1.e2, 1.e3, 1.e4, 1.e+05, 1.e6]),
)
flow.ScatterplotView(xchannel="V2-A",
ychannel="Y2-A",
xscale="logicle",
yscale="logicle",
huefacet="Dox").plot(self.ex)
ax = plt.gca()
np.testing.assert_array_equal(
ax.get_xticks(),
np.array([-100., 0., 100., 1000.]),
)
np.testing.assert_array_equal(
ax.get_yticks(),
np.array([-100., 0., 100., 1000., 10000.]),
)
# try setting default scale and _not_ setting xscale, yscale
flow.set_default_scale("log")
self.assertEqual(flow.get_default_scale(), "log")
flow.ScatterplotView(xchannel="V2-A", ychannel="Y2-A",
huefacet="Dox").plot(self.ex)
ax = plt.gca()
np.testing.assert_array_equal(
ax.get_xticks(),
np.array([1.e-2, 1.e-1, 1., 1.e1, 1.e2, 1.e3, 1.e4, 1.e5]),
)
np.testing.assert_array_equal(
ax.get_yticks(),
np.array([1.e-2, 1.e-1, 1., 1.e1, 1.e2, 1.e3, 1.e4, 1.e+05, 1.e6]),
)
flow.set_default_scale("linear") # reset the default scale
util.expand_class_attributes(QuadSelection)
util.expand_method_parameters(QuadSelection, QuadSelection.plot)
if __name__ == '__main__':
import cytoflow as flow
tube1 = flow.Tube(file='../../cytoflow/tests/data/Plate01/RFP_Well_A3.fcs',
conditions={"Dox": 10.0})
tube2 = flow.Tube(file='../../cytoflow/tests/data/Plate01/CFP_Well_A4.fcs',
conditions={"Dox": 1.0})
ex = flow.ImportOp(conditions={"Dox": "float"}, tubes=[tube1, tube2])
r = flow.QuadOp(name="Quad", xchannel="V2-A", ychannel="Y2-A")
rv = r.default_view(xscale="logicle", yscale="logicle")
plt.ioff()
rv.plot(ex)
rv.interactive = True
plt.show()
print("x:{0} y:{1}".format(r.xthreshold, r.ythreshold))
ex2 = r.apply(ex)
flow.ScatterplotView(xchannel="V2-A",
ychannel="Y2-A",
xscale="logicle",
yscale="logicle",
huefacet="Quad").plot(ex2)
plt.show()