From b8063aaec5b3b75d6f2dbdcd4b41db74f5da7d92 Mon Sep 17 00:00:00 2001
From: Lars Hubatsch <hubatsch@pks.mpg.de>
Date: Fri, 27 Nov 2020 09:51:45 +0100
Subject: [PATCH] Plotting: Add model sketches to Python.
---
Plots_Droplet_FRAP.ipynb | 71 ++++++++++++++++++++++++++++++++++++++++
1 file changed, 71 insertions(+)
diff --git a/Plots_Droplet_FRAP.ipynb b/Plots_Droplet_FRAP.ipynb
index 43a8fd5..c5a4d4f 100644
--- a/Plots_Droplet_FRAP.ipynb
+++ b/Plots_Droplet_FRAP.ipynb
@@ -470,6 +470,77 @@
"save_nice_fig(fol+'Fig1/tot_recov.pdf')"
]
},
+ {
+ "cell_type": "code",
+ "execution_count": null,
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "nice_fig('$t$ [s]', 'intensity (a.u)', [0,200], [0,0.62], [1,2])\n",
+ "# plt.sca(ax2)\n",
+ "# ax2.tick_params(axis=\"x\",direction=\"in\")\n",
+ "plt.plot(PGL[::10, 0], PGL[::10,1], '.', label='PGL-3', c='#CC406E', markersize=3, alpha=0.7, lw=2)\n",
+ "plt.legend(frameon=False, fontsize=9, handletextpad=0.4)\n",
+ "save_nice_fig(fol+'Fig1/tot_recov_PGL.pdf')"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": null,
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "nice_fig('$t$ [s]', 'intensity (a.u)', [0,10], [0,0.62], [1,2])\n",
+ "plt.plot(ATP[::1, 0], ATP[::1,1], '.', label='PLYS/ATP', c='#FF508A', markersize=3, alpha=0.7, lw=2)\n",
+ "plt.plot(CMD[::5, 0], CMD[::5,1], '.', label='CMD/PLYS', c='#7F2845', markersize=3, alpha=0.7, lw=2)\n",
+ "plt.legend(frameon=False, fontsize=9, loc=(-0.08, 0), handletextpad=0)\n",
+ "plt.yticks([]); plt.ylabel('')\n",
+ "save_nice_fig(fol+'Fig1/tot_recov_coac.pdf')"
+ ]
+ },
+ {
+ "cell_type": "markdown",
+ "metadata": {},
+ "source": [
+ "### Figure 2: model sketches"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": null,
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "model = np.loadtxt(fol+'Fig2/model_timecourse.csv', delimiter=',')\n",
+ "l_fit = plt.plot(model[:, 0], model[:, 1:], '-', lw=1,\n",
+ " c=green, label='Simulation')\n",
+ "nice_fig('$r$ [$\\mathrm{\\mu m}$]', '$\\phi_\\mathrm{u}$', [0, 2],\n",
+ " [0,1], [2.3,2])\n",
+ "plt.plot(model[:, 0], model[:, -1], c=green, lw=2)\n",
+ "plt.annotate('$t \\longrightarrow \\infty$', (0.97, 0.89), (1.3,0.85), fontsize=12)\n",
+ "save_nice_fig(fol+'Fig2/full_time_course.pdf')"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": null,
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "l_fit = plt.plot(model[:, 0], model[:, 2], '-', lw=1,\n",
+ " c=dark_grey, label='Simulation')\n",
+ "plt.plot(model[:, 0], model[:, -1], 'k', lw=2)\n",
+ "nice_fig('$r$ [$\\mathrm{\\mu m}$]', 'vol. frac. $\\phi$', [0, 2],\n",
+ " [0,1], [2.3,2])\n",
+ "plt.text(0.7, 0.15, '$\\phi_\\mathrm{u}$', fontsize=12)\n",
+ "plt.text(0.3, 0.7, '$\\phi_\\mathrm{b}$', fontsize=12)\n",
+ "plt.gca().fill_between(model[:, 0], 0, model[:, 2], color=green)\n",
+ "plt.gca().fill_between(model[:, 0], model[:, -1], model[:, 2], color=grey)\n",
+ "plt.annotate('$\\phi_\\mathrm{tot}$', (1, 0.5), (1.5,0.5),\n",
+ " arrowprops={'arrowstyle': '-'}, fontsize=12)\n",
+ "save_nice_fig(fol+'Fig2/snap_shot.pdf')"
+ ]
+ },
{
"cell_type": "markdown",
"metadata": {},
--
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