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Commit f26637fc authored by 9bee405757686ae97dc72536de9ad3a9's avatar 9bee405757686ae97dc72536de9ad3a9
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module3/exo1/analyse-syndrome-grippal.ipynb
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...@@ -9,7 +9,7 @@ ...@@ -9,7 +9,7 @@
}, },
{ {
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"metadata": {}, "metadata": {},
"outputs": [], "outputs": [],
"source": [ "source": [
...@@ -28,13 +28,11 @@ ...@@ -28,13 +28,11 @@
}, },
{ {
"cell_type": "code", "cell_type": "code",
"execution_count": null, "execution_count": 8,
"metadata": { "metadata": {},
"collapsed": true
},
"outputs": [], "outputs": [],
"source": [ "source": [
"data_url = \"http://www.sentiweb.fr/datasets/incidence-PAY-3.csv\"" "data_url = \"https://www.sentiweb.fr/datasets/incidence-PAY-3.csv\""
] ]
}, },
{ {
...@@ -61,9 +59,976 @@ ...@@ -61,9 +59,976 @@
}, },
{ {
"cell_type": "code", "cell_type": "code",
"execution_count": null, "execution_count": 9,
"metadata": {}, "metadata": {},
"outputs": [], "outputs": [
{
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" <td>23.0</td>\n",
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" <th>20</th>\n",
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" <th>21</th>\n",
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" <td>32.0</td>\n",
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" <th>23</th>\n",
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" <td>24857.0</td>\n",
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" <td>26.0</td>\n",
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" <td>22393</td>\n",
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" <td>28.0</td>\n",
" <td>40.0</td>\n",
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" <th>26</th>\n",
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" <td>23183</td>\n",
" <td>19134.0</td>\n",
" <td>27232.0</td>\n",
" <td>35</td>\n",
" <td>29.0</td>\n",
" <td>41.0</td>\n",
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" <th>27</th>\n",
" <td>202105</td>\n",
" <td>3</td>\n",
" <td>22426</td>\n",
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" <td>28.0</td>\n",
" <td>40.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
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" <th>28</th>\n",
" <td>202104</td>\n",
" <td>3</td>\n",
" <td>25804</td>\n",
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" <td>30117.0</td>\n",
" <td>39</td>\n",
" <td>32.0</td>\n",
" <td>46.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
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" <td>21810</td>\n",
" <td>17894.0</td>\n",
" <td>25726.0</td>\n",
" <td>33</td>\n",
" <td>27.0</td>\n",
" <td>39.0</td>\n",
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" <td>26096</td>\n",
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" <td>32571.0</td>\n",
" <td>47</td>\n",
" <td>35.0</td>\n",
" <td>59.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
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" <tr>\n",
" <th>1891</th>\n",
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" <td>27896</td>\n",
" <td>20885.0</td>\n",
" <td>34907.0</td>\n",
" <td>51</td>\n",
" <td>38.0</td>\n",
" <td>64.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
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" <tr>\n",
" <th>1892</th>\n",
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" <td>43154</td>\n",
" <td>32821.0</td>\n",
" <td>53487.0</td>\n",
" <td>78</td>\n",
" <td>59.0</td>\n",
" <td>97.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
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" <td>51175.0</td>\n",
" <td>74</td>\n",
" <td>55.0</td>\n",
" <td>93.0</td>\n",
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" <th>1894</th>\n",
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" <td>43740.0</td>\n",
" <td>62</td>\n",
" <td>44.0</td>\n",
" <td>80.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
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" <th>1895</th>\n",
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" <td>50362</td>\n",
" <td>36451.0</td>\n",
" <td>64273.0</td>\n",
" <td>91</td>\n",
" <td>66.0</td>\n",
" <td>116.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
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" <th>1896</th>\n",
" <td>198515</td>\n",
" <td>3</td>\n",
" <td>63881</td>\n",
" <td>45538.0</td>\n",
" <td>82224.0</td>\n",
" <td>116</td>\n",
" <td>83.0</td>\n",
" <td>149.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1897</th>\n",
" <td>198514</td>\n",
" <td>3</td>\n",
" <td>134545</td>\n",
" <td>114400.0</td>\n",
" <td>154690.0</td>\n",
" <td>244</td>\n",
" <td>207.0</td>\n",
" <td>281.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1898</th>\n",
" <td>198513</td>\n",
" <td>3</td>\n",
" <td>197206</td>\n",
" <td>176080.0</td>\n",
" <td>218332.0</td>\n",
" <td>357</td>\n",
" <td>319.0</td>\n",
" <td>395.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1899</th>\n",
" <td>198512</td>\n",
" <td>3</td>\n",
" <td>245240</td>\n",
" <td>223304.0</td>\n",
" <td>267176.0</td>\n",
" <td>445</td>\n",
" <td>405.0</td>\n",
" <td>485.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1900</th>\n",
" <td>198511</td>\n",
" <td>3</td>\n",
" <td>276205</td>\n",
" <td>252399.0</td>\n",
" <td>300011.0</td>\n",
" <td>501</td>\n",
" <td>458.0</td>\n",
" <td>544.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1901</th>\n",
" <td>198510</td>\n",
" <td>3</td>\n",
" <td>353231</td>\n",
" <td>326279.0</td>\n",
" <td>380183.0</td>\n",
" <td>640</td>\n",
" <td>591.0</td>\n",
" <td>689.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1902</th>\n",
" <td>198509</td>\n",
" <td>3</td>\n",
" <td>369895</td>\n",
" <td>341109.0</td>\n",
" <td>398681.0</td>\n",
" <td>670</td>\n",
" <td>618.0</td>\n",
" <td>722.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1903</th>\n",
" <td>198508</td>\n",
" <td>3</td>\n",
" <td>389886</td>\n",
" <td>359529.0</td>\n",
" <td>420243.0</td>\n",
" <td>707</td>\n",
" <td>652.0</td>\n",
" <td>762.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
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" <tr>\n",
" <th>1904</th>\n",
" <td>198507</td>\n",
" <td>3</td>\n",
" <td>471852</td>\n",
" <td>432599.0</td>\n",
" <td>511105.0</td>\n",
" <td>855</td>\n",
" <td>784.0</td>\n",
" <td>926.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1905</th>\n",
" <td>198506</td>\n",
" <td>3</td>\n",
" <td>565825</td>\n",
" <td>518011.0</td>\n",
" <td>613639.0</td>\n",
" <td>1026</td>\n",
" <td>939.0</td>\n",
" <td>1113.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1906</th>\n",
" <td>198505</td>\n",
" <td>3</td>\n",
" <td>637302</td>\n",
" <td>592795.0</td>\n",
" <td>681809.0</td>\n",
" <td>1155</td>\n",
" <td>1074.0</td>\n",
" <td>1236.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1907</th>\n",
" <td>198504</td>\n",
" <td>3</td>\n",
" <td>424937</td>\n",
" <td>390794.0</td>\n",
" <td>459080.0</td>\n",
" <td>770</td>\n",
" <td>708.0</td>\n",
" <td>832.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1908</th>\n",
" <td>198503</td>\n",
" <td>3</td>\n",
" <td>213901</td>\n",
" <td>174689.0</td>\n",
" <td>253113.0</td>\n",
" <td>388</td>\n",
" <td>317.0</td>\n",
" <td>459.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1909</th>\n",
" <td>198502</td>\n",
" <td>3</td>\n",
" <td>97586</td>\n",
" <td>80949.0</td>\n",
" <td>114223.0</td>\n",
" <td>177</td>\n",
" <td>147.0</td>\n",
" <td>207.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1910</th>\n",
" <td>198501</td>\n",
" <td>3</td>\n",
" <td>85489</td>\n",
" <td>65918.0</td>\n",
" <td>105060.0</td>\n",
" <td>155</td>\n",
" <td>120.0</td>\n",
" <td>190.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1911</th>\n",
" <td>198452</td>\n",
" <td>3</td>\n",
" <td>84830</td>\n",
" <td>60602.0</td>\n",
" <td>109058.0</td>\n",
" <td>154</td>\n",
" <td>110.0</td>\n",
" <td>198.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1912</th>\n",
" <td>198451</td>\n",
" <td>3</td>\n",
" <td>101726</td>\n",
" <td>80242.0</td>\n",
" <td>123210.0</td>\n",
" <td>185</td>\n",
" <td>146.0</td>\n",
" <td>224.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1913</th>\n",
" <td>198450</td>\n",
" <td>3</td>\n",
" <td>123680</td>\n",
" <td>101401.0</td>\n",
" <td>145959.0</td>\n",
" <td>225</td>\n",
" <td>184.0</td>\n",
" <td>266.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1914</th>\n",
" <td>198449</td>\n",
" <td>3</td>\n",
" <td>101073</td>\n",
" <td>81684.0</td>\n",
" <td>120462.0</td>\n",
" <td>184</td>\n",
" <td>149.0</td>\n",
" <td>219.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1915</th>\n",
" <td>198448</td>\n",
" <td>3</td>\n",
" <td>78620</td>\n",
" <td>60634.0</td>\n",
" <td>96606.0</td>\n",
" <td>143</td>\n",
" <td>110.0</td>\n",
" <td>176.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1916</th>\n",
" <td>198447</td>\n",
" <td>3</td>\n",
" <td>72029</td>\n",
" <td>54274.0</td>\n",
" <td>89784.0</td>\n",
" <td>131</td>\n",
" <td>99.0</td>\n",
" <td>163.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1917</th>\n",
" <td>198446</td>\n",
" <td>3</td>\n",
" <td>87330</td>\n",
" <td>67686.0</td>\n",
" <td>106974.0</td>\n",
" <td>159</td>\n",
" <td>123.0</td>\n",
" <td>195.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1918</th>\n",
" <td>198445</td>\n",
" <td>3</td>\n",
" <td>135223</td>\n",
" <td>101414.0</td>\n",
" <td>169032.0</td>\n",
" <td>246</td>\n",
" <td>184.0</td>\n",
" <td>308.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1919</th>\n",
" <td>198444</td>\n",
" <td>3</td>\n",
" <td>68422</td>\n",
" <td>20056.0</td>\n",
" <td>116788.0</td>\n",
" <td>125</td>\n",
" <td>37.0</td>\n",
" <td>213.0</td>\n",
" <td>FR</td>\n",
" <td>France</td>\n",
" </tr>\n",
" </tbody>\n",
"</table>\n",
"<p>1920 rows × 10 columns</p>\n",
"</div>"
],
"text/plain": [
" week indicator inc inc_low inc_up inc100 inc100_low \\\n",
"0 202132 3 18568 12351.0 24785.0 28 19.0 \n",
"1 202131 3 19144 13861.0 24427.0 29 21.0 \n",
"2 202130 3 13991 9695.0 18287.0 21 14.0 \n",
"3 202129 3 13626 9618.0 17634.0 21 15.0 \n",
"4 202128 3 8636 5430.0 11842.0 13 8.0 \n",
"5 202127 3 10693 6838.0 14548.0 16 10.0 \n",
"6 202126 3 7086 4109.0 10063.0 11 6.0 \n",
"7 202125 3 7942 5540.0 10344.0 12 8.0 \n",
"8 202124 3 4855 3011.0 6699.0 7 4.0 \n",
"9 202123 3 6710 4455.0 8965.0 10 7.0 \n",
"10 202122 3 7879 5495.0 10263.0 12 8.0 \n",
"11 202121 3 7827 5403.0 10251.0 12 8.0 \n",
"12 202120 3 10278 7540.0 13016.0 16 12.0 \n",
"13 202119 3 9539 6860.0 12218.0 14 10.0 \n",
"14 202118 3 12135 9165.0 15105.0 18 14.0 \n",
"15 202117 3 12058 8891.0 15225.0 18 13.0 \n",
"16 202116 3 16505 12735.0 20275.0 25 19.0 \n",
"17 202115 3 19306 15398.0 23214.0 29 23.0 \n",
"18 202114 3 21073 17099.0 25047.0 32 26.0 \n",
"19 202113 3 26413 22094.0 30732.0 40 33.0 \n",
"20 202112 3 30658 25919.0 35397.0 46 39.0 \n",
"21 202111 3 24988 20718.0 29258.0 38 32.0 \n",
"22 202110 3 19539 15951.0 23127.0 30 25.0 \n",
"23 202109 3 17572 13926.0 21218.0 27 21.0 \n",
"24 202108 3 20882 16907.0 24857.0 32 26.0 \n",
"25 202107 3 22393 18303.0 26483.0 34 28.0 \n",
"26 202106 3 23183 19134.0 27232.0 35 29.0 \n",
"27 202105 3 22426 18445.0 26407.0 34 28.0 \n",
"28 202104 3 25804 21491.0 30117.0 39 32.0 \n",
"29 202103 3 21810 17894.0 25726.0 33 27.0 \n",
"... ... ... ... ... ... ... ... \n",
"1890 198521 3 26096 19621.0 32571.0 47 35.0 \n",
"1891 198520 3 27896 20885.0 34907.0 51 38.0 \n",
"1892 198519 3 43154 32821.0 53487.0 78 59.0 \n",
"1893 198518 3 40555 29935.0 51175.0 74 55.0 \n",
"1894 198517 3 34053 24366.0 43740.0 62 44.0 \n",
"1895 198516 3 50362 36451.0 64273.0 91 66.0 \n",
"1896 198515 3 63881 45538.0 82224.0 116 83.0 \n",
"1897 198514 3 134545 114400.0 154690.0 244 207.0 \n",
"1898 198513 3 197206 176080.0 218332.0 357 319.0 \n",
"1899 198512 3 245240 223304.0 267176.0 445 405.0 \n",
"1900 198511 3 276205 252399.0 300011.0 501 458.0 \n",
"1901 198510 3 353231 326279.0 380183.0 640 591.0 \n",
"1902 198509 3 369895 341109.0 398681.0 670 618.0 \n",
"1903 198508 3 389886 359529.0 420243.0 707 652.0 \n",
"1904 198507 3 471852 432599.0 511105.0 855 784.0 \n",
"1905 198506 3 565825 518011.0 613639.0 1026 939.0 \n",
"1906 198505 3 637302 592795.0 681809.0 1155 1074.0 \n",
"1907 198504 3 424937 390794.0 459080.0 770 708.0 \n",
"1908 198503 3 213901 174689.0 253113.0 388 317.0 \n",
"1909 198502 3 97586 80949.0 114223.0 177 147.0 \n",
"1910 198501 3 85489 65918.0 105060.0 155 120.0 \n",
"1911 198452 3 84830 60602.0 109058.0 154 110.0 \n",
"1912 198451 3 101726 80242.0 123210.0 185 146.0 \n",
"1913 198450 3 123680 101401.0 145959.0 225 184.0 \n",
"1914 198449 3 101073 81684.0 120462.0 184 149.0 \n",
"1915 198448 3 78620 60634.0 96606.0 143 110.0 \n",
"1916 198447 3 72029 54274.0 89784.0 131 99.0 \n",
"1917 198446 3 87330 67686.0 106974.0 159 123.0 \n",
"1918 198445 3 135223 101414.0 169032.0 246 184.0 \n",
"1919 198444 3 68422 20056.0 116788.0 125 37.0 \n",
"\n",
" inc100_up geo_insee geo_name \n",
"0 37.0 FR France \n",
"1 37.0 FR France \n",
"2 28.0 FR France \n",
"3 27.0 FR France \n",
"4 18.0 FR France \n",
"5 22.0 FR France \n",
"6 16.0 FR France \n",
"7 16.0 FR France \n",
"8 10.0 FR France \n",
"9 13.0 FR France \n",
"10 16.0 FR France \n",
"11 16.0 FR France \n",
"12 20.0 FR France \n",
"13 18.0 FR France \n",
"14 22.0 FR France \n",
"15 23.0 FR France \n",
"16 31.0 FR France \n",
"17 35.0 FR France \n",
"18 38.0 FR France \n",
"19 47.0 FR France \n",
"20 53.0 FR France \n",
"21 44.0 FR France \n",
"22 35.0 FR France \n",
"23 33.0 FR France \n",
"24 38.0 FR France \n",
"25 40.0 FR France \n",
"26 41.0 FR France \n",
"27 40.0 FR France \n",
"28 46.0 FR France \n",
"29 39.0 FR France \n",
"... ... ... ... \n",
"1890 59.0 FR France \n",
"1891 64.0 FR France \n",
"1892 97.0 FR France \n",
"1893 93.0 FR France \n",
"1894 80.0 FR France \n",
"1895 116.0 FR France \n",
"1896 149.0 FR France \n",
"1897 281.0 FR France \n",
"1898 395.0 FR France \n",
"1899 485.0 FR France \n",
"1900 544.0 FR France \n",
"1901 689.0 FR France \n",
"1902 722.0 FR France \n",
"1903 762.0 FR France \n",
"1904 926.0 FR France \n",
"1905 1113.0 FR France \n",
"1906 1236.0 FR France \n",
"1907 832.0 FR France \n",
"1908 459.0 FR France \n",
"1909 207.0 FR France \n",
"1910 190.0 FR France \n",
"1911 198.0 FR France \n",
"1912 224.0 FR France \n",
"1913 266.0 FR France \n",
"1914 219.0 FR France \n",
"1915 176.0 FR France \n",
"1916 163.0 FR France \n",
"1917 195.0 FR France \n",
"1918 308.0 FR France \n",
"1919 213.0 FR France \n",
"\n",
"[1920 rows x 10 columns]"
]
},
"execution_count": 9,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [ "source": [
"raw_data = pd.read_csv(data_url, skiprows=1)\n", "raw_data = pd.read_csv(data_url, skiprows=1)\n",
"raw_data" "raw_data"
...@@ -153,9 +1118,7 @@ ...@@ -153,9 +1118,7 @@
{ {
"cell_type": "code", "cell_type": "code",
"execution_count": null, "execution_count": null,
"metadata": { "metadata": {},
"collapsed": true
},
"outputs": [], "outputs": [],
"source": [ "source": [
"sorted_data = data.set_index('period').sort_index()" "sorted_data = data.set_index('period').sort_index()"
...@@ -253,9 +1216,7 @@ ...@@ -253,9 +1216,7 @@
{ {
"cell_type": "code", "cell_type": "code",
"execution_count": null, "execution_count": null,
"metadata": { "metadata": {},
"collapsed": true
},
"outputs": [], "outputs": [],
"source": [ "source": [
"first_august_week = [pd.Period(pd.Timestamp(y, 8, 1), 'W')\n", "first_august_week = [pd.Period(pd.Timestamp(y, 8, 1), 'W')\n",
...@@ -341,9 +1302,7 @@ ...@@ -341,9 +1302,7 @@
{ {
"cell_type": "code", "cell_type": "code",
"execution_count": null, "execution_count": null,
"metadata": { "metadata": {},
"collapsed": true
},
"outputs": [], "outputs": [],
"source": [] "source": []
} }
...@@ -364,7 +1323,7 @@ ...@@ -364,7 +1323,7 @@
"name": "python", "name": "python",
"nbconvert_exporter": "python", "nbconvert_exporter": "python",
"pygments_lexer": "ipython3", "pygments_lexer": "ipython3",
"version": "3.6.1" "version": "3.6.4"
} }
}, },
"nbformat": 4, "nbformat": 4,
......
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