import string import numpy as np import matplotlib.pyplot as plt from itertools import product def prepare_fig(nrows, ncols, width=8, height=None, rheight=2, unit=1/2.54, left=0.01, right=0.95, bottom=0.01, top=0.95, wspace=0.4, hspace=0.4): if height is None: height = rheight * nrows fig = plt.figure(figsize=(width * unit, height * unit)) grid = fig.add_gridspec(nrows=nrows, ncols=ncols, wspace=wspace, hspace=hspace, left=left, right=right, top=top, bottom=bottom) axes = np.zeros((nrows, ncols), dtype=object) for i, j in product(range(nrows), range(ncols)): axes[i, j] = fig.add_subplot(grid[i, j]) axes[i, j].set_facecolor('none') return fig, axes def hide_axis(ax, side='bottom'): ax.spines[side].set_visible(False) params = {side: False, 'label' + side: False} ax.tick_params(axis='x' if side in ['top', 'bottom'] else 'y', which='both', **params) return None def letter_subplots(axes, labels=None, x=0.02, y=1, ha='left', va='bottom', fontsize=16, fontweight='bold', **kwargs): if labels is None: labels = string.ascii_lowercase for ax, label in zip(axes, labels): ax.text(x, y, label, transform=ax.transAxes, ha=ha, va=va, fontsize=fontsize, fontweight=fontweight, **kwargs) return None def xlimits(ax, time, minval=None, maxval=None, pad=0.05): limits = [minval, maxval] if minval is None: limits[0] = time[0] if maxval is None: limits[1] = time[-1] span = limits[1] - limits[0] if pad and minval is None: limits[0] -= span * pad if pad and maxval is None: limits[1] += span * pad return ax.set_xlim(limits) def ylimits(ax, signal, minval=None, maxval=None, pad=0.05): limits = [minval, maxval] if minval is None: limits[0] = signal.min() if maxval is None: limits[1] = signal.max() span = limits[1] - limits[0] if pad and minval is None: limits[0] -= span * pad if pad and maxval is None: limits[1] += span * pad return ax.set_ylim(limits) def xlabel(ax, label, y=-0.1, fontsize=20, **kwargs): ax.set_xlabel(label, fontsize=fontsize, **kwargs) ax.xaxis.set_label_coords(0.5, y) return None def ylabel(ax, label, x=-0.2, fontsize=20, **kwargs): ax.set_ylabel(label, fontsize=fontsize, **kwargs) ax.yaxis.set_label_coords(x, 0.5) return None def super_xlabel(label, fig, high_ax, low_ax, y=0.005, **kwargs): x = (low_ax.get_position().x0 + high_ax.get_position().x1) / 2 fig.supxlabel(label, x=x, y=y, **kwargs) return None def super_ylabel(label, fig, high_ax, low_ax, x=0.005, **kwargs): y = (low_ax.get_position().y0 + high_ax.get_position().y1) / 2 fig.supylabel(label, x=x, y=y, **kwargs) return None def plot_line(ax, time, signal, ymin=None, ymax=None, xmin=None, xmax=None, xpad=None, ypad=0.05, yloc=None, xloc=None, **kwargs): handles = ax.plot(time, signal, **kwargs) xlimits(ax, time, minval=xmin, maxval=xmax, pad=xpad) ylimits(ax, signal, minval=ymin, maxval=ymax, pad=ypad) if xloc is not None: ax.xaxis.set_major_locator(plt.MultipleLocator(xloc)) if yloc is not None: ax.yaxis.set_major_locator(plt.MultipleLocator(yloc)) return handles def plot_barcode(ax, time, binary, offset=0.5, xmin=None, xmax=None, **kwargs): lower, upper, handles = 0, 1, [] for i in range(binary.shape[1]): h = ax.fill_between(time, lower, upper, where=binary[:, i], **kwargs) handles.append(h) if i < binary.shape[1] - 1: lower += offset + 1 upper += offset + 1 xlimits(ax, time, minval=xmin, maxval=xmax, pad=0) ax.set_ylim(0, upper) hide_axis(ax, 'bottom') hide_axis(ax, 'left') return handles def indicate_zoom(fig, high_ax, low_ax, zoom_abs, **kwargs): y0 = low_ax.get_position().y0 y1 = high_ax.get_position().y1 transform = low_ax.transData + fig.transFigure.inverted() x0 = transform.transform((zoom_abs[0], 0))[0] x1 = transform.transform((zoom_abs[1], 0))[0] fig.add_artist(plt.Rectangle((x0, y0), x1 - x0, y1 - y0, transform=fig.transFigure, **kwargs)) return None def assign_colors(handles, types, colors): for handle, type_id in zip(handles, types): handle.set_color(colors[str(int(type_id))]) return None def reorder_traces(handles, signal, zlow=2, zhigh=2.5): inds = np.argsort(signal.std(axis=0)) zorders = np.linspace(zlow, zhigh, len(inds))[::-1] for ind, z in zip(inds, zorders): handles[ind].set_zorder(z) return None