def plot_thresh_zstat(self):
"""Plot the thresholded zstat."""
m = Mosaic(stat=self.inputs.zstat_thresh_file,
mask=self.inputs.mask_file)
m.plot_activation(pos_cmap="OrRd_r", vfloor=3.3, alpha=.9)
out_fname = nii_to_png(self.inputs.zstat_thresh_file)
self.out_files.append(out_fname)
m.savefig(out_fname)
m.close()
def plot_thresh_zstat(self):
"""Plot the thresholded zstat."""
m = Mosaic(stat=self.inputs.zstat_thresh_file,
mask=self.inputs.mask_file)
m.plot_activation(pos_cmap="OrRd_r", vfloor=3.3, alpha=.9)
out_fname = nii_to_png(self.inputs.zstat_thresh_file)
self.out_files.append(out_fname)
m.savefig(out_fname)
m.close()
def plot_zstats(self):
"""Plot the positive and negative z stats with a low threshold."""
for z_file in self.inputs.zstat_files:
m = Mosaic(self.mean, z_file, self.mask, step=1)
m.plot_activation(pos_cmap="Reds_r", neg_cmap="Blues",
thresh=1.7, alpha=.85)
png_name = nii_to_png(z_file)
m.savefig(png_name)
m.close()
self.out_files.append(png_name)
def plot_zstats(self):
"""Plot the positive and negative z stats with a low threshold."""
for z_file in self.inputs.zstat_files:
m = Mosaic(self.mean, z_file, self.mask, step=1)
m.plot_activation(pos_cmap="Reds_r",
neg_cmap="Blues",
thresh=1.7,
alpha=.85)
png_name = nii_to_png(z_file)
m.savefig(png_name)
m.close()
self.out_files.append(png_name)
def write_zstat_images(self):
"""Show the fixed effects inference maps."""
for fname in self.inputs.zstat_files:
m = Mosaic(self.inputs.anatomy, fname,
self.every_mask, step=self.step)
m.plot_activation(pos_cmap="Reds_r", neg_cmap="Blues",
thresh=2.3, alpha=.85)
contrast = fname.split("/")[-2]
os.mkdir(contrast)
out_fname = op.join(contrast, "zstat1.png")
self.zstat_files.append(op.abspath(contrast))
m.savefig(out_fname)
m.close()
def write_zstat_images(self):
"""Show the fixed effects inference maps."""
for fname in self.inputs.zstat_files:
m = Mosaic(self.inputs.anatomy, fname,
self.every_mask, step=self.step)
m.plot_activation(pos_cmap="Reds_r", neg_cmap="Blues",
thresh=2.3, alpha=.85)
contrast = fname.split("/")[-2]
os.mkdir(contrast)
out_fname = op.join(contrast, "zstat1.png")
self.zstat_files.append(op.abspath(contrast))
m.savefig(out_fname)
m.close()