def setUp(self):
self.cwd = os.path.dirname(
os.path.abspath(__file__)) + "/data/Plate01/"
tube1 = flow.Tube(file=self.cwd + 'RFP_Well_A3.fcs',
conditions={"Dox": 10.0})
tube2 = flow.Tube(file=self.cwd + 'CFP_Well_A4.fcs',
conditions={"Dox": 1.0})
import_op = flow.ImportOp(conditions={"Dox": "float"},
tubes=[tube1, tube2])
ex = import_op.apply()
# this works so much better on transformed data
logicle = flow.LogicleTransformOp()
logicle.name = "Logicle transformation"
logicle.channels = ['V2-A', 'Y2-A', 'B1-A']
logicle.estimate(ex)
self.ex = logicle.apply(ex)
self.gate = flow.Range2DOp(name="Range2D",
xchannel="V2-A",
ychannel="Y2-A",
xlow=0.0,
xhigh=0.4,
ylow=0.4,
yhigh=0.8)
def setUp(self):
super().setUp()
self.gate = flow.Range2DOp(name="Range2D",
xchannel="V2-A",
ychannel="Y2-A",
xlow=-200,
xhigh=800,
ylow=800,
yhigh=30000)
def setUp(self):
self.cwd = os.path.dirname(os.path.abspath(__file__)) + "/data/Plate01/"
tube1 = flow.Tube(file = self.cwd + 'RFP_Well_A3.fcs', conditions = {"Dox" : 10.0})
tube2 = flow.Tube(file= self.cwd + 'CFP_Well_A4.fcs', conditions = {"Dox" : 1.0})
import_op = flow.ImportOp(conditions = {"Dox" : "float"},
tubes = [tube1, tube2])
self.ex = import_op.apply()
self.gate = flow.Range2DOp(name = "Range2D",
xchannel = "V2-A",
ychannel = "Y2-A",
xlow = -200, xhigh = 800,
ylow = 800, yhigh = 30000)
"""Update selection traits"""
self.op.xlow = min(pos1.xdata, pos2.xdata)
self.op.xhigh = max(pos1.xdata, pos2.xdata)
self.op.ylow = min(pos1.ydata, pos2.ydata)
self.op.yhigh = max(pos1.ydata, pos2.ydata)
util.expand_class_attributes(RangeSelection2D)
util.expand_method_parameters(RangeSelection2D, RangeSelection2D.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.Range2DOp(xchannel="V2-A", ychannel="Y2-A")
rv = r.default_view()
plt.ioff()
rv.plot(ex)
rv.interactive = True
plt.show()
print("x:({0}, {1}) y:({2}, {3})".format(r.xlow, r.xhigh, r.ylow,
r.yhigh))