From f595c39e192810a878d8b952ec17a07f75736150 Mon Sep 17 00:00:00 2001
From: freiche <felix.reichel@mpl.mpg.de>
Date: Mon, 21 Feb 2022 23:38:33 +0100
Subject: [PATCH] update figure S3
---
.../plots/SI/fig_S3/fig_S3A_RBC_GA_area.pdf | Bin 29073 -> 29073 bytes
.../plots/SI/fig_S3/fig_S3A_RBC_GA_deform.pdf | Bin 26089 -> 26089 bytes
.../SI/fig_S3/fig_S3B_RBC_diamide_area.pdf | Bin 29426 -> 29426 bytes
.../SI/fig_S3/fig_S3B_RBC_diamide_deform.pdf | Bin 26419 -> 26419 bytes
figure_plots/plots_fig_S3.ipynb | 56 +++++++++---------
5 files changed, 29 insertions(+), 27 deletions(-)
diff --git a/figure_plots/plots/SI/fig_S3/fig_S3A_RBC_GA_area.pdf b/figure_plots/plots/SI/fig_S3/fig_S3A_RBC_GA_area.pdf
index a5cf93b146c82060995cf2249ae97888ce815b0c..aaef3bce7338c73f888cd559d0adb7651b9a3fa2 100644
GIT binary patch
delta 23
ecmbREm~rA`#trE?97cvlh6YB)rknF~lvn|4X$QLi
delta 23
ecmbREm~rA`#trE?9ERqGCPwBa=9}|#lvn|51P9Cj
diff --git a/figure_plots/plots/SI/fig_S3/fig_S3A_RBC_GA_deform.pdf b/figure_plots/plots/SI/fig_S3/fig_S3A_RBC_GA_deform.pdf
index cb50313ed159904275b33f79762e43dfb1de4e1b..994288289f81014989d3b82f4eaa2616cd6e0265 100644
GIT binary patch
delta 23
ecmaEPn(^gn#trd_97cvlh6YB)W}DL!n^*vKxCnIs
delta 23
ecmaEPn(^gn#trd_9ERqGCPwBa7Ms%(n^*vLQwW9t
diff --git a/figure_plots/plots/SI/fig_S3/fig_S3B_RBC_diamide_area.pdf b/figure_plots/plots/SI/fig_S3/fig_S3B_RBC_diamide_area.pdf
index e54aedc1bc4556d833cc22f4f16384047572cf09..63f5252fbd5694f57738d21b6c2b758df0e50174 100644
GIT binary patch
delta 22
ecmezLl=0J3#tk}o>_&!0h6YB)n~n4Kvj6~b8VGa%
delta 22
ecmezLl=0J3#tk}o?1tusCPwBan~n4Kvj6~bnh1jc
diff --git a/figure_plots/plots/SI/fig_S3/fig_S3B_RBC_diamide_deform.pdf b/figure_plots/plots/SI/fig_S3/fig_S3B_RBC_diamide_deform.pdf
index b7e4360c1f8cba55eaf38730a2b7a9d4ae2c4a5d..d792e492a1a92e5e5d5f3a5ae69b1c84bb7af2e3 100644
GIT binary patch
delta 21
dcmdmdj&buj#tlD{*o_R03=NEoHzgah003pL2fhFR
delta 21
dcmdmdj&buj#tlD{*bU7MO^nP<HYFRg003qn2h9Kg
diff --git a/figure_plots/plots_fig_S3.ipynb b/figure_plots/plots_fig_S3.ipynb
index 548a0a7..dd815b1 100644
--- a/figure_plots/plots_fig_S3.ipynb
+++ b/figure_plots/plots_fig_S3.ipynb
@@ -14,7 +14,7 @@
},
{
"cell_type": "code",
- "execution_count": 7,
+ "execution_count": 2,
"metadata": {
"collapsed": true
},
@@ -33,7 +33,7 @@
},
{
"cell_type": "code",
- "execution_count": 8,
+ "execution_count": 3,
"outputs": [],
"source": [
"savefolder = r\"plots\\SI\\fig_S3\""
@@ -47,7 +47,7 @@
},
{
"cell_type": "code",
- "execution_count": 9,
+ "execution_count": 4,
"outputs": [],
"source": [
"def plot_violins(dataframe, x_axis, y_axis, pal='tab10', color=None, saturation=.9,\n",
@@ -125,7 +125,7 @@
},
{
"cell_type": "code",
- "execution_count": 10,
+ "execution_count": 5,
"outputs": [],
"source": [
"glutaraldehyde_file = \"data\\RTfDC\\RBC\\glutaraldehyde_20201214.tsv\"\n",
@@ -140,13 +140,13 @@
},
{
"cell_type": "code",
- "execution_count": 16,
+ "execution_count": 6,
"outputs": [
{
"data": {
"text/plain": "Text(0, 0.5, 'Projected area [µm$^2$]')"
},
- "execution_count": 16,
+ "execution_count": 6,
"metadata": {},
"output_type": "execute_result"
},
@@ -191,7 +191,7 @@
},
{
"cell_type": "code",
- "execution_count": 6,
+ "execution_count": 7,
"outputs": [],
"source": [
"save_name = \"fig_S3A_RBC_GA_area\"\n",
@@ -208,7 +208,7 @@
},
{
"cell_type": "code",
- "execution_count": 23,
+ "execution_count": 8,
"outputs": [
{
"name": "stdout",
@@ -273,13 +273,13 @@
},
{
"cell_type": "code",
- "execution_count": 24,
+ "execution_count": 9,
"outputs": [
{
"data": {
"text/plain": "[Text(0, 0, 'CTRL'),\n Text(1, 0, '0.0001'),\n Text(2, 0, '0.0005'),\n Text(3, 0, '0.001'),\n Text(4, 0, '0.0025'),\n Text(5, 0, '0.005')]"
},
- "execution_count": 24,
+ "execution_count": 9,
"metadata": {},
"output_type": "execute_result"
},
@@ -333,12 +333,12 @@
"name": "#%%\n"
}
},
- "execution_count": 25,
+ "execution_count": 10,
"outputs": []
},
{
"cell_type": "code",
- "execution_count": 26,
+ "execution_count": 11,
"outputs": [
{
"name": "stdout",
@@ -403,7 +403,7 @@
},
{
"cell_type": "code",
- "execution_count": 28,
+ "execution_count": 12,
"outputs": [],
"source": [
"diamide_file = \"data\\RTfDC\\RBC\\diamide_20201214.tsv\"\n",
@@ -430,13 +430,13 @@
},
{
"cell_type": "code",
- "execution_count": 29,
+ "execution_count": 13,
"outputs": [
{
"data": {
"text/plain": "Text(0, 0.5, 'Projected area [µm$^2$]')"
},
- "execution_count": 29,
+ "execution_count": 13,
"metadata": {},
"output_type": "execute_result"
},
@@ -483,7 +483,7 @@
},
{
"cell_type": "code",
- "execution_count": 30,
+ "execution_count": 14,
"outputs": [],
"source": [
"save_name = \"fig_S3B_RBC_diamide_area\"\n",
@@ -500,22 +500,22 @@
},
{
"cell_type": "code",
- "execution_count": 31,
+ "execution_count": 15,
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"CTRL vs 0.1mM:\n",
- "Student's t-Test: p-value = 3.9226713952246814e-48\n",
+ "Student's t-Test: p-value = 0.0\n",
"Welch's t-Test: p-value = 2.1054588408456662e-47 \n",
"\n",
"CTRL vs 0.5mM:\n",
- "Student's t-Test: p-value = 7.842650404242887e-152\n",
+ "Student's t-Test: p-value = 0.0\n",
"Welch's t-Test: p-value = 3.862413764992832e-148 \n",
"\n",
"CTRL vs 1mM:\n",
- "Student's t-Test: p-value = 1.5484391391412718e-214\n",
+ "Student's t-Test: p-value = 0.0\n",
"Welch's t-Test: p-value = 1.3031072298036893e-209 \n",
"\n",
"CTRL vs 2mM:\n",
@@ -539,7 +539,8 @@
"for concentration in plot_order[1:]:\n",
" df_dia_concentration = df_diamide[df_diamide['diamide_concentration'] == concentration]\n",
" t_statistic, p_value = ttest_ind(df_diamide_ctrl[y_para], df_dia_concentration[y_para],\n",
- " equal_var=True # set false, if variance differs\n",
+ " equal_var=True, # set false, if variance differs\n",
+ " permutations = 10\n",
" )\n",
" t_statistic_welch, p_value_welch = ttest_ind(df_diamide_ctrl[y_para], df_dia_concentration[y_para],\n",
" equal_var=False # set false, if variance differs\n",
@@ -569,13 +570,13 @@
},
{
"cell_type": "code",
- "execution_count": 32,
+ "execution_count": 16,
"outputs": [
{
"data": {
"text/plain": "(0.095, 0.405)"
},
- "execution_count": 32,
+ "execution_count": 16,
"metadata": {},
"output_type": "execute_result"
},
@@ -621,7 +622,7 @@
},
{
"cell_type": "code",
- "execution_count": 33,
+ "execution_count": 17,
"outputs": [],
"source": [
"save_name = \"fig_S3B_RBC_diamide_deform\"\n",
@@ -638,7 +639,7 @@
},
{
"cell_type": "code",
- "execution_count": 34,
+ "execution_count": 21,
"outputs": [
{
"name": "stdout",
@@ -677,7 +678,8 @@
"for concentration in plot_order[1:]:\n",
" df_dia_concentration = df_diamide[df_diamide['diamide_concentration'] == concentration]\n",
" t_statistic, p_value = ttest_ind(df_diamide_ctrl[y_para], df_dia_concentration[y_para],\n",
- " equal_var=True # set false, if variance differs\n",
+ " equal_var=True, # set false, if variance differs\n",
+ " alternative='two-sided'\n",
" )\n",
" t_statistic_welch, p_value_welch = ttest_ind(df_diamide_ctrl[y_para], df_dia_concentration[y_para],\n",
" equal_var=False # set false, if variance differs\n",
@@ -695,7 +697,7 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 19,
"outputs": [],
"source": [],
"metadata": {
--
GitLab