def save_single_uverskyPlot(
hydropathy,
mean_net_charge,
filename,
label="",
title="Uversky plot",
legendOn=True,
xLim=1,
yLim=1,
fontSize=10,
saveFormat='png'):
"""
Plots a single sequence on the Uversky plot (hydropathy vs. mean net charge) and save it to 'filename' (.png is
appended).
INPUT:
--------------------------------------------------------------------------------
hydropathy | Mean hydropathy for sequence
mean_net_charge | Absolute magnitude of the protein's net charge divided by sequence length
filename | Path/name of file to save plot (.png is appended)
label | On-plot label of sequence (DEFAULT = no label)
title | Plot title (DEFAULT = "Uversky plot")
legendOn | Include the phase diagram region legend (DEFAULT = True)
xLim | Set upper limit for the x axis (DEFAULT = 1)
yLim | Set upper limit for the y axis (DEFAULT = 1)
fontSize | Set font size for the point labels (DEFAULT = 10)
saveFormat | Defines the file formal to save plots as. This parameter
is passed to matplotlibs savefig command which supports
the following filetypes: emf, eps, pdf, png, ps, raw,
rgba, svg, svgz. (DEFAULT = png)
OUTPUT:
--------------------------------------------------------------------------------
Nothing but single uversky plot should be saved to disk
"""
plotting.save_single_uverskyPlot(
hydropathy,
mean_net_charge,
filename,
label,
title,
legendOn,
xLim,
yLim,
fontSize,
saveFormat)
def save_single_uverskyPlot(
hydropathy,
mean_net_charge,
filename,
label="",
title="Uversky plot",
legendOn=True,
xLim=1,
yLim=1,
fontSize=10):
"""
Plots a single sequence on the Uversky plot (hydropathy vs. mean net charge) and save it to 'filename' (.png is
appended).
INPUT:
--------------------------------------------------------------------------------
hydropathy | Mean hydropathy for sequence
mean_net_charge | Absolute magnitude of the protein's net charge divided by sequence length
filename | Path/name of file to save plot (.png is appended)
label | On-plot label of sequence (DEFAULT = no label)
title | Plot title (DEFAULT = "Uversky plot")
legendOn | Include the phase diagram region legend (DEFAULT = True)
xLim | Set upper limit for the x axis (DEFAULT = 1)
yLim | Set upper limit for the y axis (DEFAULT = 1)
fontSize | Set font size for the point labels (DEFAULT = 10)
OUTPUT:
--------------------------------------------------------------------------------
Nothing but single uversky plot should be saved to disk
"""
plotting.save_single_uverskyPlot(
hydropathy,
mean_net_charge,
filename,
label,
title,
legendOn,
xLim,
yLim,
fontSize)
def save_uverskyPlot(
self,
filename,
label="",
title="Uversky plot",
legendOn=True,
xLim=1,
yLim=1,
fontSize=10):
"""
Generates the Pappu-Das phase diagram (diagram of states), places
this sequence on that plot, and saves it at the <filename> location
INPUT:
--------------------------------------------------------------------------------
filename | A writeable filename
label | A label for the point on the phase diagram
title | Plot title (DEFAULT = 'Uversky plot')
legendOn | Boolean for if the figure legend should be displayed or not
xLim | Max value for the x axis (mean net charge) (DEFAULT = 1)
yLim | Max value for the y axis (hydropathy) (DEFAULT = 1)
fontSize | Size of font for label (DEFAULT = 10)
OUTPUT:
--------------------------------------------------------------------------------
If the argument getFig is False (which it is by default) then the Uversky plot appears on
the screen. If getFig is set to True then the function returns a matplotlib plt object, which
can be further manipulated.
"""
plotting.save_single_uverskyPlot(
self.get_uversky_hydropathy(),
self.get_mean_net_charge(),
filename,
label,
title,
legendOn,
xLim,
yLim,
fontSize)
def save_single_uverskyPlot(hydropathy,
mean_net_charge,
filename,
label="",
title="Uversky plot",
legendOn=True,
xLim=1,
yLim=1,
fontSize=10,
saveFormat='png'):
"""
Plots a single sequence on the Uversky plot (hydropathy vs. mean net charge) and save it to 'filename' (.png is
appended).
INPUT:
--------------------------------------------------------------------------------
hydropathy | Mean hydropathy for sequence
mean_net_charge | Absolute magnitude of the protein's net charge divided by sequence length
filename | Path/name of file to save plot (.png is appended)
label | On-plot label of sequence (DEFAULT = no label)
title | Plot title (DEFAULT = "Uversky plot")
legendOn | Include the phase diagram region legend (DEFAULT = True)
xLim | Set upper limit for the x axis (DEFAULT = 1)
yLim | Set upper limit for the y axis (DEFAULT = 1)
fontSize | Set font size for the point labels (DEFAULT = 10)
saveFormat | Defines the file formal to save plots as. This parameter
is passed to matplotlibs savefig command which supports
the following filetypes: emf, eps, pdf, png, ps, raw,
rgba, svg, svgz. (DEFAULT = png)
OUTPUT:
--------------------------------------------------------------------------------
Nothing but single uversky plot should be saved to disk
"""
plotting.save_single_uverskyPlot(hydropathy, mean_net_charge, filename,
label, title, legendOn, xLim, yLim,
fontSize, saveFormat)
