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W2 D1, D2, D3, D5 postcourse bugfix (#535)
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* Closes #387 and fixes RGB -> C1C2C0

* Closes #395

* Process tutorial notebooks

* Closes #483

* Process tutorial notebooks

* Closes #406 and fixes colors

* Process tutorial notebooks

* Closes #404

* Process tutorial notebooks

* Closes #419

* Process tutorial notebooks

* Closes #410 T3 comments

* Closes  #410

* Process tutorial notebooks

* Partially addresses #435 for T1

* Process tutorial notebooks

* Created using Colaboratory

* Process tutorial notebooks

* Closes #457 #446, partially addresses #455

* Closes #456

* Process tutorial notebooks

* Closes #455

* Created using Colaboratory

* Closes #460

* Process tutorial notebooks

Co-authored-by: GitHub Action <[email protected]>
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@JesseLivezey @actions-user
JesseLivezey and actions-user authored Aug 25, 2020
1 parent ec1b9de commit 54eb773
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98 changes: 49 additions & 49 deletions tutorials/W2D1_BayesianStatistics/W2D1_Tutorial1.ipynb
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"id": "view-in-github"
},
"source": [
"<a href=\"https://colab.research.google.com/github/NeuromatchAcademy/course-content/blob/master/tutorials/W2D1_BayesianStatistics/W2D1_Tutorial1.ipynb\" target=\"_parent\"><img src=\"https://colab.research.google.com/assets/colab-badge.svg\" alt=\"Open In Colab\"/></a>"
"<a href=\"https://colab.research.google.com/github/NeuromatchAcademy/course-content/blob/W2D1-postcourse-bugfix/tutorials/W2D1_BayesianStatistics/W2D1_Tutorial1.ipynb\" target=\"_parent\"><img src=\"https://colab.research.google.com/assets/colab-badge.svg\" alt=\"Open In Colab\"/></a>"
]
},
{
Expand Down Expand Up @@ -48,10 +48,10 @@
"cellView": "form",
"colab": {
"base_uri": "https://localhost:8080/",
"height": 516
"height": 519
},
"colab_type": "code",
"outputId": "3fd0f192-d565-4140-f64c-7151d8ddcd44"
"outputId": "bccac551-e778-4f58-ea61-cdd93ffd4cde"
},
"outputs": [],
"source": [
Expand Down Expand Up @@ -128,7 +128,7 @@
" px = np.zeros_like(x)\n",
"\n",
" fig, ax = plt.subplots()\n",
" ax.plot(x, px, '-', color='xkcd:green', LineWidth=2, label='Prior')\n",
" ax.plot(x, px, '-', color='C2', LineWidth=2, label='Prior')\n",
" ax.legend()\n",
" ax.set_ylabel('Probability')\n",
" ax.set_xlabel('Orientation (Degrees)')\n",
Expand Down Expand Up @@ -160,9 +160,9 @@
" if ax is None:\n",
" fig, ax = plt.subplots()\n",
"\n",
" ax.plot(x, likelihood, '-r', LineWidth=2, label='Auditory')\n",
" ax.plot(x, prior, '-b', LineWidth=2, label='Visual')\n",
" ax.plot(x, posterior_pointwise, '-g', LineWidth=2, label='Posterior')\n",
" ax.plot(x, likelihood, '-C1', LineWidth=2, label='Auditory')\n",
" ax.plot(x, prior, '-C0', LineWidth=2, label='Visual')\n",
" ax.plot(x, posterior_pointwise, '-C2', LineWidth=2, label='Posterior')\n",
" ax.legend()\n",
" ax.set_ylabel('Probability')\n",
" ax.set_xlabel('Orientation (Degrees)')\n",
Expand All @@ -187,7 +187,7 @@
" fig_w, fig_h = plt.rcParams.get('figure.figsize')\n",
" fig, ax = plt.subplots(nrows=2, ncols=1, figsize=(fig_w, 2 * fig_h))\n",
"\n",
" ax[0].plot(mu_visuals, max_posteriors, '-g', label='mean')\n",
" ax[0].plot(mu_visuals, max_posteriors, '-C2', label='mean')\n",
" ax[0].set_xlabel('Visual stimulus position')\n",
" ax[0].set_ylabel('Multiplied posterior mean')\n",
" ax[0].set_title('Sample output')\n",
Expand Down Expand Up @@ -215,7 +215,7 @@
" )\n",
" ax[0].set_title('Example combination')\n",
"\n",
" ax[1].plot(mu_visuals, posterior_modes, '-g', label='argmax')\n",
" ax[1].plot(mu_visuals, posterior_modes, '-C2', label='argmax')\n",
" ax[1].set_xlabel('Visual stimulus position\\n(Mean of blue dist. above)')\n",
" ax[1].set_ylabel('Posterior mode\\n(Peak of green dist. above)')\n",
" fig.tight_layout()"
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"metadata": {
"colab": {
"base_uri": "https://localhost:8080/",
"height": 329
"height": 332
},
"colab_type": "code",
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"outputId": "600f468b-7f03-45c2-a67f-c5af67121ba3"
},
"outputs": [],
"source": [
Expand Down Expand Up @@ -362,10 +362,10 @@
"cellView": "form",
"colab": {
"base_uri": "https://localhost:8080/",
"height": 516
"height": 519
},
"colab_type": "code",
"outputId": "1c125444-92a6-46c4-b527-a7217a542dfb"
"outputId": "f27d7154-1f82-4dd7-d21d-1d1ae4c9ae8c"
},
"outputs": [],
"source": [
Expand Down Expand Up @@ -490,10 +490,10 @@
"metadata": {
"colab": {
"base_uri": "https://localhost:8080/",
"height": 329
"height": 332
},
"colab_type": "code",
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"outputId": "d24f3579-18f5-4ccd-b2bb-7d078ad9c7f8"
},
"outputs": [],
"source": [
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"colab": {
"base_uri": "https://localhost:8080/",
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"source": [
Expand Down Expand Up @@ -635,10 +635,10 @@
"cellView": "form",
"colab": {
"base_uri": "https://localhost:8080/",
"height": 516
"height": 519
},
"colab_type": "code",
"outputId": "51c73791-4291-443b-bf31-d71d74059592"
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"outputs": [],
"source": [
Expand Down Expand Up @@ -729,12 +729,12 @@
" mus_by_integration.append(mu_integrated)\n",
" mus_analytical.append(mu_analytical)\n",
"\n",
" return mu_visuals, mus_by_integration, mus_analytical\n",
" return mu_visuals, mus_analytical, mus_by_integration\n",
"\n",
"\n",
"# Uncomment the lines below to visualize your results\n",
"# mu_visuals, mu_computational, mu_analytical = compare_computational_analytical_means()\n",
"# plot_visual(mu_visuals, mu_computational, mu_analytical)"
"# mu_visuals, mu_analytical, mu_computational = compare_computational_analytical_means()\n",
"# plot_visual(mu_visuals, mu_analytical, mu_computational)"
]
},
{
Expand All @@ -744,10 +744,10 @@
"cellView": "code",
"colab": {
"base_uri": "https://localhost:8080/",
"height": 616
"height": 620
},
"colab_type": "code",
"outputId": "78480dbf-d355-403e-cd82-07197ccb29aa"
"outputId": "04dc281e-c2dc-4664-a097-e3162905e94e"
},
"outputs": [],
"source": [
Expand Down Expand Up @@ -790,14 +790,14 @@
" mus_by_integration.append(mu_integrated)\n",
" mus_analytical.append(mu_analytical)\n",
"\n",
" return mu_visuals, mus_by_integration, mus_analytical\n",
" return mu_visuals, mus_analytical, mus_by_integration\n",
"\n",
"\n",
"# Uncomment the lines below to visualize your results\n",
"mu_visuals, mu_computational, mu_analytical = compare_computational_analytical_means()\n",
"mu_visuals, mu_analytical, mu_computational = compare_computational_analytical_means()\n",
"\n",
"with plt.xkcd():\n",
" plot_visual(mu_visuals, mu_computational, mu_analytical)"
" plot_visual(mu_visuals, mu_analytical, mu_computational)"
]
},
{
Expand All @@ -819,10 +819,10 @@
"cellView": "form",
"colab": {
"base_uri": "https://localhost:8080/",
"height": 516
"height": 519
},
"colab_type": "code",
"outputId": "9b56907a-807d-49e8-be3e-bd050b4fe1f5"
"outputId": "b050d942-8c2d-4d5d-fc1c-b3f478da343e"
},
"outputs": [],
"source": [
Expand Down Expand Up @@ -894,7 +894,7 @@
" ## Finish this function so that it returns the location of the mode\n",
" #\n",
" # Comment out the line below to test out your solution\n",
" raise NotImplementedError(\"Please implement the bimodal prior\")\n",
" raise NotImplementedError(\"Please implement the posterior mode\")\n",
" ################################################################################\n",
" mode = ...\n",
"\n",
Expand Down Expand Up @@ -943,10 +943,10 @@
"metadata": {
"colab": {
"base_uri": "https://localhost:8080/",
"height": 616
"height": 620
},
"colab_type": "code",
"outputId": "868e2a1d-0a1f-4e60-e81d-7f100f4504d1"
"outputId": "1652973d-2186-4666-8a9d-f4ac766eaa7a"
},
"outputs": [],
"source": [
Expand All @@ -970,7 +970,7 @@
" ## Finish this function so that it returns the location of the mode\n",
" #\n",
" # Comment out the line below to test out your solution\n",
" #raise NotImplementedError(\"Please implement the bimodal prior\")\n",
" #raise NotImplementedError(\"Please implement the posterior mode\")\n",
" ################################################################################\n",
" mode = x[np.argmax(posterior)]\n",
"\n",
Expand Down
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