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Edit version number in notebooks
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‎nbs/02-about.ipynb‎

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"\n",
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"DABEST is written in Python by [Joses W. Ho](https://twitter.com/jacuzzijo), with design and input from [Adam Claridge-Chang](https://twitter.com/adamcchang) and other [lab members](https://www.claridgechang.net/people.html).\n",
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"\n",
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"Features in v2024.03.29 were added by [Zinan Lu](https://github.com/Jacobluke-), [Kah Seng LIAN](https://github.com/sunroofgod), [Lucas Wang Zhuoyu](https://github.com/Lucas1213WZY).\n",
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"Features in v2024.03.29 were added by [Zinan Lu](https://github.com/Jacobluke-), [Kah Seng Lian](https://github.com/sunroofgod), [Lucas Wang Zhuoyu](https://github.com/Lucas1213WZY).\n",
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"\n",
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"Features in v2023.02.14 were added by [Yixuan Li](https://github.com/LI-Yixuan), [Zinan Lu](https://github.com/Jacobluke-) and [Rou Zhang](https://github.com/ZHANGROU-99).\n",
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"\n",

‎nbs/API/dabest_object.ipynb‎

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{
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"data": {
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"text/plain": [
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"DABEST v2023.03.29\n",
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"DABEST v2024.03.29\n",
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"==================\n",
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" \n",
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"Good afternoon!\n",
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"The current time is Tue Apr 18 14:47:26 2023.\n",
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"The current time is Tue Mar 19 15:33:25 2024.\n",
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"\n",
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"The unpaired mean difference between control and test is 0.5 [95%CI -0.0412, 1.0].\n",
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"The p-value of the two-sided permutation t-test is 0.0758, calculated for legacy purposes only. \n",
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"\n",
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"5000 bootstrap samples were taken; the confidence interval is bias-corrected and accelerated.\n",
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"Any p-value reported is the probability of observing theeffect size (or greater),\n",
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"assuming the null hypothesis ofzero difference is true.\n",
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"assuming the null hypothesis of zero difference is true.\n",
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"For each p-value, 5000 reshuffles of the control and test labels were performed.\n",
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"\n",
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"To get the results of all valid statistical tests, use `.mean_diff.statistical_tests`"
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"id": "8e9b8635",
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"metadata": {},
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"outputs": [
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{
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"name": "stderr",
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"output_type": "stream",
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"text": [
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"/Users/jacobluke/opt/anaconda3/envs/dabest-nbdev/lib/python3.8/site-packages/dabest/_stats_tools/effsize.py:72: UserWarning: Using median as the statistic in bootstrapping may result in a biased estimate and cause problems with BCa confidence intervals. Consider using a different statistic, such as the mean.\n",
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"When plotting, please consider using percetile confidence intervals by specifying `ci_type='percentile'`. For detailed information, refer to https://github.com/ACCLAB/DABEST-python/issues/129 \n",
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"\n",
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" warnings.warn(message=mes1+mes2, category=UserWarning)\n"
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]
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},
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{
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"data": {
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"DABEST v2023.03.29\n",
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"DABEST v2024.03.29\n",
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"==================\n",
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" \n",
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"Good afternoon!\n",
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"The current time is Tue Apr 18 14:47:28 2023.\n",
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"The current time is Tue Mar 19 15:33:26 2024.\n",
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"\n",
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"The unpaired median difference between control and test is 0.5 [95%CI -0.0758, 0.991].\n",
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"The p-value of the two-sided permutation t-test is 0.103, calculated for legacy purposes only. \n",
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"\n",
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"5000 bootstrap samples were taken; the confidence interval is bias-corrected and accelerated.\n",
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"Any p-value reported is the probability of observing theeffect size (or greater),\n",
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"assuming the null hypothesis ofzero difference is true.\n",
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"assuming the null hypothesis of zero difference is true.\n",
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"For each p-value, 5000 reshuffles of the control and test labels were performed.\n",
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"\n",
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"To get the results of all valid statistical tests, use `.median_diff.statistical_tests`"
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{
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"data": {
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"text/plain": [
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"DABEST v2023.03.29\n",
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"DABEST v2024.03.29\n",
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"==================\n",
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" \n",
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"Good afternoon!\n",
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"The current time is Tue Apr 18 14:47:29 2023.\n",
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"The current time is Tue Mar 19 15:33:27 2024.\n",
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"\n",
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"The unpaired Cohen's d between control and test is 0.471 [95%CI -0.0843, 0.976].\n",
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"The p-value of the two-sided permutation t-test is 0.0758, calculated for legacy purposes only. \n",
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"\n",
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"5000 bootstrap samples were taken; the confidence interval is bias-corrected and accelerated.\n",
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"Any p-value reported is the probability of observing theeffect size (or greater),\n",
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"assuming the null hypothesis ofzero difference is true.\n",
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"assuming the null hypothesis of zero difference is true.\n",
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"For each p-value, 5000 reshuffles of the control and test labels were performed.\n",
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"\n",
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"To get the results of all valid statistical tests, use `.cohens_d.statistical_tests`"
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{
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"data": {
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"text/plain": [
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"DABEST v2023.03.29\n",
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"DABEST v2024.03.29\n",
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"==================\n",
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" \n",
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"Good afternoon!\n",
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"The current time is Tue Apr 18 14:47:30 2023.\n",
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"The current time is Tue Mar 19 15:33:29 2024.\n",
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"\n",
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"The unpaired Cohen's h between control and test is 0.0 [95%CI -0.613, 0.429].\n",
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"The p-value of the two-sided permutation t-test is 0.799, calculated for legacy purposes only. \n",
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"\n",
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"5000 bootstrap samples were taken; the confidence interval is bias-corrected and accelerated.\n",
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"Any p-value reported is the probability of observing theeffect size (or greater),\n",
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"assuming the null hypothesis ofzero difference is true.\n",
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"assuming the null hypothesis of zero difference is true.\n",
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"For each p-value, 5000 reshuffles of the control and test labels were performed.\n",
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"\n",
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"To get the results of all valid statistical tests, use `.cohens_h.statistical_tests`"
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{
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"data": {
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"DABEST v2023.03.29\n",
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"DABEST v2024.03.29\n",
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"==================\n",
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" \n",
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"Good afternoon!\n",
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"The current time is Tue Apr 18 14:47:32 2023.\n",
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"The current time is Tue Mar 19 15:33:30 2024.\n",
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"\n",
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"The unpaired Hedges' g between control and test is 0.465 [95%CI -0.0832, 0.963].\n",
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"The p-value of the two-sided permutation t-test is 0.0758, calculated for legacy purposes only. \n",
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"\n",
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"5000 bootstrap samples were taken; the confidence interval is bias-corrected and accelerated.\n",
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"Any p-value reported is the probability of observing theeffect size (or greater),\n",
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"assuming the null hypothesis ofzero difference is true.\n",
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"assuming the null hypothesis of zero difference is true.\n",
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"For each p-value, 5000 reshuffles of the control and test labels were performed.\n",
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"\n",
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"To get the results of all valid statistical tests, use `.hedges_g.statistical_tests`"
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{
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"data": {
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"text/plain": [
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"DABEST v2023.03.29\n",
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"DABEST v2024.03.29\n",
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"==================\n",
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" \n",
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"Good afternoon!\n",
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"The current time is Tue Apr 18 14:47:40 2023.\n",
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"The current time is Tue Mar 19 15:33:41 2024.\n",
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"\n",
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"The unpaired Cliff's delta between control and test is 0.28 [95%CI -0.0244, 0.533].\n",
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"The p-value of the two-sided permutation t-test is 0.061, calculated for legacy purposes only. \n",
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"\n",
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"5000 bootstrap samples were taken; the confidence interval is bias-corrected and accelerated.\n",
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"Any p-value reported is the probability of observing theeffect size (or greater),\n",
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"assuming the null hypothesis ofzero difference is true.\n",
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"assuming the null hypothesis of zero difference is true.\n",
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"For each p-value, 5000 reshuffles of the control and test labels were performed.\n",
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"\n",
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"To get the results of all valid statistical tests, use `.cliffs_delta.statistical_tests`"
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{
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"data": {
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"text/plain": [
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"DABEST v2023.02.14\n",
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"DABEST v2024.03.29\n",
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"==================\n",
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" \n",
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"Good morning!\n",
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"The current time is Tue May 16 01:11:14 2023.\n",
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"Good afternoon!\n",
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"The current time is Tue Mar 19 15:33:45 2024.\n",
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"\n",
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"The unpaired deltas' g between W Placebo and M Placebo is 0.793 [95%CI 0.553, 1.1].\n",
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"The unpaired deltas' g between W Placebo and M Placebo is 1.74 [95%CI 1.1, 2.31].\n",
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"The p-value of the two-sided permutation t-test is 0.0, calculated for legacy purposes only. \n",
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"\n",
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"The unpaired deltas' g between W Drug and M Drug is 0.528 [95%CI 0.286, 0.765].\n",
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"The unpaired deltas' g between W Drug and M Drug is 1.33 [95%CI 0.611, 1.96].\n",
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"The p-value of the two-sided permutation t-test is 0.0, calculated for legacy purposes only. \n",
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"\n",
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"The deltas' g between Placebo and Drug is -0.651 [95%CI -1.6, 0.217].\n",
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"The p-value of the two-sided permutation t-test is 0.0, calculated for legacy purposes only. \n",
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"The deltas' g between Placebo and Drug is -0.651 [95%CI -1.59, 0.165].\n",
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"The p-value of the two-sided permutation t-test is 0.0694, calculated for legacy purposes only. \n",
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"\n",
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"5000 bootstrap samples were taken; the confidence interval is bias-corrected and accelerated.\n",
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"Any p-value reported is the probability of observing the effect size (or greater),\n",
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"$\\Delta_{g} = \\frac{\\Delta_{\\Delta}}{s_{\\Delta_{\\Delta}}}$"
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]
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{
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"cell_type": "code",
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"execution_count": null,
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"id": "07a84d5f",
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"metadata": {},
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"outputs": [],
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"source": []
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‎nbs/API/delta_objects.ipynb‎

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‎nbs/API/load.ipynb‎

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"metadata": {},
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"outputs": [
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"output_type": "stream",
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"text": [
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"/Users/jacobluke/opt/anaconda3/envs/dabest-nbdev/lib/python3.8/site-packages/dabest/_classes.py:305: FutureWarning: In a future version, `df.iloc[:, i] = newvals` will attempt to set the values inplace instead of always setting a new array. To retain the old behavior, use either `df[df.columns[i]] = newvals` or, if columns are non-unique, `df.isetitem(i, newvals)`\n",
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" plot_data.loc[:, self.__xvar] = pd.Categorical(plot_data[self.__xvar],\n"
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"text/plain": [
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"DABEST v2023.2.14\n",
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"=================\n",
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" \n",
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"Good evening!\n",
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"The current time is Tue Apr 18 12:23:19 2023.\n",
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"DABEST v2024.03.29\n",
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"==================\n",
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" \n",
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"Good afternoon!\n",
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"The current time is Tue Mar 19 15:34:58 2024.\n",
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"\n",
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"Effect size(s) with 95% confidence intervals will be computed for:\n",
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‎nbs/tutorials/01-basics.ipynb‎

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‎nbs/tutorials/02-repeated_measures.ipynb‎

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"DABEST v2024.03.29\n",
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"==================\n",
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"Good evening!\n",
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"The current time is Thu Feb 1 23:37:16 2024.\n",
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"Good afternoon!\n",
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"The current time is Tue Mar 19 15:36:05 2024.\n",
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"\n",
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"Paired effect size(s) for the sequential design of repeated-measures experiment \n",
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"with 95% confidence intervals will be computed for:\n",
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{
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"data": {
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"DABEST v2023.03.29\n",
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" \n",
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"Good evening!\n",
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"The current time is Thu Feb 1 23:37:16 2024.\n",
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"Good afternoon!\n",
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"The current time is Tue Mar 19 15:36:05 2024.\n",
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"data": {
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"DABEST v2023.03.29\n",
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"==================\n",
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" \n",
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"Good evening!\n",
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"The current time is Thu Feb 1 23:37:17 2024.\n",
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"Good afternoon!\n",
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"The current time is Tue Mar 19 15:36:07 2024.\n",
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"\n",
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"The paired mean difference for the sequential design of repeated-measures experiment \n",
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"between Control 1 and Test 1 is 0.48 [95%CI 0.237, 0.73].\n",
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"The p-value of the two-sided permutation t-test is 0.001, calculated for legacy purposes only. \n",
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"\n",
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"5000 bootstrap samples were taken; the confidence interval is bias-corrected and accelerated.\n",
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"Any p-value reported is the probability of observing theeffect size (or greater),\n",
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"assuming the null hypothesis ofzero difference is true.\n",
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"assuming the null hypothesis of zero difference is true.\n",
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"To get the results of all valid statistical tests, use `.mean_diff.statistical_tests`"
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"DABEST v2023.03.29\n",
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"DABEST v2024.03.29\n",
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"==================\n",
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" \n",
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"Good evening!\n",
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"The current time is Thu Feb 1 23:37:18 2024.\n",
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"Good afternoon!\n",
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"The current time is Tue Mar 19 15:36:08 2024.\n",
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"\n",
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"The paired mean difference for repeated measures against baseline \n",
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"between Control 1 and Test 1 is 0.48 [95%CI 0.237, 0.73].\n",
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"The p-value of the two-sided permutation t-test is 0.001, calculated for legacy purposes only. \n",
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"5000 bootstrap samples were taken; the confidence interval is bias-corrected and accelerated.\n",
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"Any p-value reported is the probability of observing theeffect size (or greater),\n",
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"assuming the null hypothesis ofzero difference is true.\n",
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"assuming the null hypothesis of zero difference is true.\n",
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"For each p-value, 5000 reshuffles of the control and test labels were performed.\n",
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"To get the results of all valid statistical tests, use `.mean_diff.statistical_tests`"
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"DABEST v2024.03.29\n",
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"==================\n",
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" \n",
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"Good evening!\n",
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"The current time is Thu Feb 1 23:37:21 2024.\n",
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"Good afternoon!\n",
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"The current time is Tue Mar 19 15:36:12 2024.\n",
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"\n",
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"The paired mean difference for the sequential design of repeated-measures experiment \n",
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"between Control 1 and Test 1 is 0.48 [95%CI 0.237, 0.73].\n",
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"assuming the null hypothesis ofzero difference is true.\n",
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"assuming the null hypothesis of zero difference is true.\n",
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"DABEST v2024.03.29\n",
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"==================\n",
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" \n",
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"Good evening!\n",
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"The current time is Thu Feb 1 23:37:24 2024.\n",
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"Good afternoon!\n",
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"The current time is Tue Mar 19 15:36:16 2024.\n",
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"\n",
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"The paired mean difference for repeated measures against baseline \n",
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"between Control 1 and Test 1 is 0.48 [95%CI 0.237, 0.73].\n",
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"5000 bootstrap samples were taken; the confidence interval is bias-corrected and accelerated.\n",
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"assuming the null hypothesis ofzero difference is true.\n",
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"assuming the null hypothesis of zero difference is true.\n",
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"For each p-value, 5000 reshuffles of the control and test labels were performed.\n",
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"\n",
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"To get the results of all valid statistical tests, use `.mean_diff.statistical_tests`"
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