generated from opensafely/research-template
/
process_eval.do
326 lines (230 loc) · 16.5 KB
/
process_eval.do
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
/*======================================================================================
DO FILE NAME: process_eval.do
PROJECT: Germ Defence
AUTHOR: S Walter
DATE: Sept 2021
DESCRIPTION OF FILE: Analyse website usage data for intervention group
DATASETS USED: data in memory ($output/process_eval.dta)
OUTPUT CREATED: procees_eval.xlsx, process_eval_cat.xlsx
procees_eval2.xlsx, process_eval_cat2.xlsx
=======================================================================================*/
global gd "`c(pwd)'"
use "$gd/output/process_eval.dta", replace
*limit to intervention practices only
drop if intervention!=1
gen user_rate=n_users/list_size
xtile deprivation_decile = deprivation_pctile, nq(10)
*** 1. Main process analysis - all intervention practices
** A. Model outcomes with user rate as continuous covariate
* i. deprivation as continuous
glm rti_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("RTI") replace
putexcel A1=matrix(r(table)), names
glm arti_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("aRTI") modify
putexcel A1=matrix(r(table)), names
glm gastro_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("gastro") modify
putexcel A1=matrix(r(table)), names
glm coviddiag_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("coviddiag") modify
putexcel A1=matrix(r(table)), names
glm covidsympsens_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("covidsympsens") modify
putexcel A1=matrix(r(table)), names
glm covidsympspec_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("covidsympspec") modify
putexcel A1=matrix(r(table)), names
glm antibio_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("antibio") modify
putexcel A1=matrix(r(table)), names
glm adm_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("adm") modify
putexcel A1=matrix(r(table)), names
* ii. deprivation as categorical (deciles)
xi: glm rti_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("RTI2") modify
putexcel A1=matrix(r(table)), names
xi: glm arti_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("aRTI2") modify
putexcel A1=matrix(r(table)), names
xi: glm gastro_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("gastro2") modify
putexcel A1=matrix(r(table)), names
xi: glm coviddiag_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("coviddiag2") modify
putexcel A1=matrix(r(table)), names
xi: glm covidsympsens_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("covidsympsens2") modify
putexcel A1=matrix(r(table)), names
xi: glm covidsympspec_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("covidsympspec2") modify
putexcel A1=matrix(r(table)), names
xi: glm antibio_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("antibio2") modify
putexcel A1=matrix(r(table)), names
xi: glm adm_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval.xlsx", sheet("adm2") modify
putexcel A1=matrix(r(table)), names
** B. Model user rate as categorical
gen users_cat3=0
replace users_cat3=1 if user_rate>0.01 & user_rate<0.1
replace users_cat3=2 if user_rate>=0.1
* i. deprivation as continuous
glm rti_events i.users_cat3 deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("RTI") replace
putexcel A1=matrix(r(table)), names
glm arti_events i.users_cat3 deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("aRTI") modify
putexcel A1=matrix(r(table)), names
glm gastro_events i.users_cat3 deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("gastro") modify
putexcel A1=matrix(r(table)), names
glm coviddiag_events i.users_cat3 deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("coviddiag") modify
putexcel A1=matrix(r(table)), names
glm covidsympsens_events i.users_cat3 deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("covidsympsens") modify
putexcel A1=matrix(r(table)), names
glm covidsympspec_events i.users_cat3 deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("covidsympspec") modify
putexcel A1=matrix(r(table)), names
glm antibio_events i.users_cat3 deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("antibio") modify
putexcel A1=matrix(r(table)), names
glm adm_events i.users_cat3 deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("adm") modify
putexcel A1=matrix(r(table)), names
* ii. deprivation as categorical (deciles)
xi: glm rti_events i.users_cat3 i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("RTI2") modify
putexcel A1=matrix(r(table)), names
xi: glm arti_events i.users_cat3 i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("aRTI2") modify
putexcel A1=matrix(r(table)), names
xi: glm gastro_events i.users_cat3 i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("gastro2") modify
putexcel A1=matrix(r(table)), names
xi: glm coviddiag_events i.users_cat3 i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("coviddiag2") modify
putexcel A1=matrix(r(table)), names
xi: glm covidsympsens_events i.users_cat3 i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("covidsympsens2") modify
putexcel A1=matrix(r(table)), names
xi: glm covidsympspec_events i.users_cat3 i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("covidsympspec2") modify
putexcel A1=matrix(r(table)), names
xi: glm antibio_events i.users_cat3 i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("antibio2") modify
putexcel A1=matrix(r(table)), names
xi: glm adm_events i.users_cat3 i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat.xlsx", sheet("adm2") modify
putexcel A1=matrix(r(table)), names
** 3. Model only practices with >1% uptake
drop if user_rate<0.01
**A. User rate as continuous
* i. deprivation as continuous
glm rti_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("RTI") replace
putexcel A1=matrix(r(table)), names
glm arti_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("aRTI") modify
putexcel A1=matrix(r(table)), names
glm gastro_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("gastro") modify
putexcel A1=matrix(r(table)), names
glm coviddiag_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("coviddiag") modify
putexcel A1=matrix(r(table)), names
glm covidsympsens_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("covidsympsens") modify
putexcel A1=matrix(r(table)), names
glm covidsympspec_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("covidsympspec") modify
putexcel A1=matrix(r(table)), names
glm antibio_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("antibio") modify
putexcel A1=matrix(r(table)), names
glm adm_events user_rate deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("adm") modify
putexcel A1=matrix(r(table)), names
* ii. deprivation as categorical (deciles)
xi: glm rti_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("RTI2") modify
putexcel A1=matrix(r(table)), names
xi: glm arti_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("aRTI2") modify
putexcel A1=matrix(r(table)), names
xi: glm gastro_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("gastro2") modify
putexcel A1=matrix(r(table)), names
xi: glm coviddiag_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("coviddiag2") modify
putexcel A1=matrix(r(table)), names
xi: glm covidsympsens_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("covidsympsens2") modify
putexcel A1=matrix(r(table)), names
xi: glm covidsympspec_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("covidsympspec2") modify
putexcel A1=matrix(r(table)), names
xi: glm antibio_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("antibio2") modify
putexcel A1=matrix(r(table)), names
xi: glm adm_events user_rate i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval2.xlsx", sheet("adm2") modify
putexcel A1=matrix(r(table)), names
** B. Model user rate as categorical
xtile user_rate_over1pct_cat = user_rate, nq(3)
summarize user_rate_over1pct_cat, if user_rate_over1pct_cat==0
summarize user_rate_over1pct_cat, if user_rate_over1pct_cat==1
summarize user_rate_over1pct_cat, if user_rate_over1pct_cat==2
* i. deprivation as continuous
glm rti_events i.user_rate_over1pct_cat deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("RTI") replace
putexcel A1=matrix(r(table)), names
glm arti_events i.user_rate_over1pct_cat deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("aRTI") modify
putexcel A1=matrix(r(table)), names
glm gastro_events i.user_rate_over1pct_cat deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("gastro") modify
putexcel A1=matrix(r(table)), names
glm coviddiag_events i.user_rate_over1pct_cat deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("coviddiag") modify
putexcel A1=matrix(r(table)), names
glm covidsympsens_events i.user_rate_over1pct_cat deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("covidsympsens") modify
putexcel A1=matrix(r(table)), names
glm covidsympspec_events i.user_rate_over1pct_cat deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("covidsympspec") modify
putexcel A1=matrix(r(table)), names
glm antibio_events i.user_rate_over1pct_cat deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("antibio") modify
putexcel A1=matrix(r(table)), names
glm adm_events i.user_rate_over1pct_cat deprivation_pctile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("adm") modify
putexcel A1=matrix(r(table)), names
* ii. deprivation as categorical (deciles)
xi: glm rti_events i.user_rate_over1pct_cat i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("RTI2") modify
putexcel A1=matrix(r(table)), names
xi: glm arti_events i.user_rate_over1pct_cat i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("aRTI2") modify
putexcel A1=matrix(r(table)), names
xi: glm gastro_events i.user_rate_over1pct_cat i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("gastro2") modify
putexcel A1=matrix(r(table)), names
xi: glm coviddiag_events i.user_rate_over1pct_cat i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("coviddiag2") modify
putexcel A1=matrix(r(table)), names
xi: glm covidsympsens_events i.user_rate_over1pct_cat i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("covidsympsens2") modify
putexcel A1=matrix(r(table)), names
xi: glm covidsympspec_events i.user_rate_over1pct_cat i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("covidsympspec2") modify
putexcel A1=matrix(r(table)), names
xi: glm antibio_events i.user_rate_over1pct_cat i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("antibio2") modify
putexcel A1=matrix(r(table)), names
xi: glm adm_events i.user_rate_over1pct_cat i.deprivation_decile ethnic_minority_pct median_age, family(nb) link(log) exposure(list_size)
putexcel set "$gd/output/process_eval_cat2.xlsx", sheet("adm2") modify
putexcel A1=matrix(r(table)), names