From 1e86eccb21750262c93bba566efa4c75c9b9c76d Mon Sep 17 00:00:00 2001
From: 47d07510df84c8e10a21889149b23ec9
<47d07510df84c8e10a21889149b23ec9@app-learninglab.inria.fr>
Date: Tue, 1 Jun 2021 12:33:24 +0000
Subject: [PATCH] =?UTF-8?q?Etude=20de=20l'incidence=20de=20la=20varicelle?=
=?UTF-8?q?=20=C3=A0=20partir=20du=20mod=C3=A8le=20li=C3=A9=20aux=20sympto?=
=?UTF-8?q?mes=20grippaux?=
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
---
module3/exo2/DonneesGrippeMOOC.csv | 1591 ++++++++++++++++++++++++++++
module3/exo2/exercice.ipynb | 1486 +++++++++++++++++++++++++-
2 files changed, 3074 insertions(+), 3 deletions(-)
create mode 100644 module3/exo2/DonneesGrippeMOOC.csv
diff --git a/module3/exo2/DonneesGrippeMOOC.csv b/module3/exo2/DonneesGrippeMOOC.csv
new file mode 100644
index 0000000..11ce114
--- /dev/null
+++ b/module3/exo2/DonneesGrippeMOOC.csv
@@ -0,0 +1,1591 @@
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diff --git a/module3/exo2/exercice.ipynb b/module3/exo2/exercice.ipynb
index 0bbbe37..5221689 100644
--- a/module3/exo2/exercice.ipynb
+++ b/module3/exo2/exercice.ipynb
@@ -1,5 +1,1486 @@
{
- "cells": [],
+ "cells": [
+ {
+ "cell_type": "markdown",
+ "metadata": {},
+ "source": [
+ "# Incidence de la varicelle"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 1,
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "%matplotlib inline\n",
+ "import matplotlib.pyplot as plt\n",
+ "import pandas as pd\n",
+ "import isoweek\n",
+ "from os import path as pth"
+ ]
+ },
+ {
+ "cell_type": "markdown",
+ "metadata": {},
+ "source": [
+ "Les données de l'incidence du syndrome grippal sont disponibles du site Web du [Réseau Sentinelles](http://www.sentiweb.fr/). Par soucis d'efficacité et de pérennité, nous utilisons une copie locale de ces données. Dans le cas où ce fichier n'existerait pas ou plus, nous les récupérons sous forme d'un fichier en format CSV dont chaque ligne correspond à une semaine de la période demandée. Ces données sont ensuite sauvegardées à l'emplacement défini pour pouvoir être réutilisées par la suite."
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 2,
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "data_url = \"http://www.sentiweb.fr/datasets/incidence-PAY-7.csv\""
+ ]
+ },
+ {
+ "cell_type": "markdown",
+ "metadata": {},
+ "source": [
+ "Voici l'explication des colonnes données [sur le site d'origine](https://ns.sentiweb.fr/incidence/csv-schema-v1.json):\n",
+ "\n",
+ "| Nom de colonne | Libellé de colonne |\n",
+ "|----------------|-----------------------------------------------------------------------------------------------------------------------------------|\n",
+ "| week | Semaine calendaire (ISO 8601) |\n",
+ "| indicator | Code de l'indicateur de surveillance |\n",
+ "| inc | Estimation de l'incidence de consultations en nombre de cas |\n",
+ "| inc_low | Estimation de la borne inférieure de l'IC95% du nombre de cas de consultation |\n",
+ "| inc_up | Estimation de la borne supérieure de l'IC95% du nombre de cas de consultation |\n",
+ "| inc100 | Estimation du taux d'incidence du nombre de cas de consultation (en cas pour 100,000 habitants) |\n",
+ "| inc100_low | Estimation de la borne inférieure de l'IC95% du taux d'incidence du nombre de cas de consultation (en cas pour 100,000 habitants) |\n",
+ "| inc100_up | Estimation de la borne supérieure de l'IC95% du taux d'incidence du nombre de cas de consultation (en cas pour 100,000 habitants) |\n",
+ "| geo_insee | Code de la zone géographique concernée (Code INSEE) http://www.insee.fr/fr/methodes/nomenclatures/cog/ |\n",
+ "| geo_name | Libellé de la zone géographique (ce libellé peut être modifié sans préavis) |\n",
+ "\n",
+ "La première ligne du fichier CSV est un commentaire, que nous ignorons en précisant `skiprows=1`."
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 3,
+ "metadata": {},
+ "outputs": [
+ {
+ "data": {
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+ " \n",
+ " | 1578 | \n",
+ " 199108 | \n",
+ " 7 | \n",
+ " 13289 | \n",
+ " 8813 | \n",
+ " 17765 | \n",
+ " 23 | \n",
+ " 15 | \n",
+ " 31 | \n",
+ " FR | \n",
+ " France | \n",
+ "
\n",
+ " \n",
+ " | 1579 | \n",
+ " 199107 | \n",
+ " 7 | \n",
+ " 12337 | \n",
+ " 8077 | \n",
+ " 16597 | \n",
+ " 22 | \n",
+ " 15 | \n",
+ " 29 | \n",
+ " FR | \n",
+ " France | \n",
+ "
\n",
+ " \n",
+ " | 1580 | \n",
+ " 199106 | \n",
+ " 7 | \n",
+ " 10877 | \n",
+ " 7013 | \n",
+ " 14741 | \n",
+ " 19 | \n",
+ " 12 | \n",
+ " 26 | \n",
+ " FR | \n",
+ " France | \n",
+ "
\n",
+ " \n",
+ " | 1581 | \n",
+ " 199105 | \n",
+ " 7 | \n",
+ " 10442 | \n",
+ " 6544 | \n",
+ " 14340 | \n",
+ " 18 | \n",
+ " 11 | \n",
+ " 25 | \n",
+ " FR | \n",
+ " France | \n",
+ "
\n",
+ " \n",
+ " | 1582 | \n",
+ " 199104 | \n",
+ " 7 | \n",
+ " 7913 | \n",
+ " 4563 | \n",
+ " 11263 | \n",
+ " 14 | \n",
+ " 8 | \n",
+ " 20 | \n",
+ " FR | \n",
+ " France | \n",
+ "
\n",
+ " \n",
+ " | 1583 | \n",
+ " 199103 | \n",
+ " 7 | \n",
+ " 15387 | \n",
+ " 10484 | \n",
+ " 20290 | \n",
+ " 27 | \n",
+ " 18 | \n",
+ " 36 | \n",
+ " FR | \n",
+ " France | \n",
+ "
\n",
+ " \n",
+ " | 1584 | \n",
+ " 199102 | \n",
+ " 7 | \n",
+ " 16277 | \n",
+ " 11046 | \n",
+ " 21508 | \n",
+ " 29 | \n",
+ " 20 | \n",
+ " 38 | \n",
+ " FR | \n",
+ " France | \n",
+ "
\n",
+ " \n",
+ " | 1585 | \n",
+ " 199101 | \n",
+ " 7 | \n",
+ " 15565 | \n",
+ " 10271 | \n",
+ " 20859 | \n",
+ " 27 | \n",
+ " 18 | \n",
+ " 36 | \n",
+ " FR | \n",
+ " France | \n",
+ "
\n",
+ " \n",
+ " | 1586 | \n",
+ " 199052 | \n",
+ " 7 | \n",
+ " 19375 | \n",
+ " 13295 | \n",
+ " 25455 | \n",
+ " 34 | \n",
+ " 23 | \n",
+ " 45 | \n",
+ " FR | \n",
+ " France | \n",
+ "
\n",
+ " \n",
+ " | 1587 | \n",
+ " 199051 | \n",
+ " 7 | \n",
+ " 19080 | \n",
+ " 13807 | \n",
+ " 24353 | \n",
+ " 34 | \n",
+ " 25 | \n",
+ " 43 | \n",
+ " FR | \n",
+ " France | \n",
+ "
\n",
+ " \n",
+ " | 1588 | \n",
+ " 199050 | \n",
+ " 7 | \n",
+ " 11079 | \n",
+ " 6660 | \n",
+ " 15498 | \n",
+ " 20 | \n",
+ " 12 | \n",
+ " 28 | \n",
+ " FR | \n",
+ " France | \n",
+ "
\n",
+ " \n",
+ " | 1589 | \n",
+ " 199049 | \n",
+ " 7 | \n",
+ " 1143 | \n",
+ " 0 | \n",
+ " 2610 | \n",
+ " 2 | \n",
+ " 0 | \n",
+ " 5 | \n",
+ " FR | \n",
+ " France | \n",
+ "
\n",
+ " \n",
+ "
\n",
+ "
1590 rows × 10 columns
\n",
+ "
\n",
+ "\n",
+ "
\n",
+ " \n",
+ " \n",
+ " | \n",
+ " week | \n",
+ " indicator | \n",
+ " inc | \n",
+ " inc_low | \n",
+ " inc_up | \n",
+ " inc100 | \n",
+ " inc100_low | \n",
+ " inc100_up | \n",
+ " geo_insee | \n",
+ " geo_name | \n",
+ "
\n",
+ " \n",
+ " \n",
+ " \n",
+ "
\n",
+ "