Skip to content

Charlson

Json to generate Charlson score. Path: $MR_ROOT/Projects/Resources/examples/Charlson/charlson.pretify.json   This is for THIN,  input is DIAGNOSIS signal 

  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
{
    "model_json_version": "2",
    "serialize_learning_set": "0",
    "model_actions": [
        {
            "action_type": "feat_generator",
            "fg_type": "age"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "MI",
            "sets": "comma_rel:Diseases/MI.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "CHF",
            "sets": "comma_rel:Diseases/CHF.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "PVD",
            "sets": "comma_rel:Diseases/PVD.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "CerebrovascularD",
            "sets": "comma_rel:Diseases/CerebrovascularD.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "Dementia",
            "sets": "comma_rel:Diseases/Dementia.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "ChronicPulmD",
            "sets": "comma_rel:Diseases/ChronicPulmD.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "RheumaticD",
            "sets": "comma_rel:Diseases/RheumaticD.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "PepticUlcer",
            "sets": "comma_rel:Diseases/PepticUlcer.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "MildLiver",
            "sets": "comma_rel:Diseases/MildLiver.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "DiabetesNComplx",
            "sets": "comma_rel:Diseases/DiabetesNComplx.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "DiabetesWComplx",
            "sets": "comma_rel:Diseases/DiabetesWComplx.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "XPlegia",
            "sets": "comma_rel:Diseases/XPlegia.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "Renal",
            "sets": "comma_rel:Diseases/Renal.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "Cancers",
            "sets": "comma_rel:Diseases/Cancers.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "SevereLiver",
            "sets": "comma_rel:Diseases/SevereLiver.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "Metastatic",
            "sets": "comma_rel:Diseases/Metastatic.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "HIV",
            "sets": "comma_rel:Diseases/HIV.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "Leukemia",
            "sets": "comma_rel:Diseases/Leukemia.list"
        },
        {
            "action_type": "feat_generator",
            "fg_type": "basic",
            "type": "category_set",
            "window": [
                "win_from=0;win_to=18250"
            ],
            "time_unit": "Days",
            "signal": "DIAGNOSIS",
            "in_set_name": "Lymphoma",
            "sets": "comma_rel:Diseases/Lymphoma.list"
        },
        //Processings
        {
            "action_type": "fp_set",
            "members": [
                //Age binnings
                {
                    "fp_type": "binning",
                    "name": "Age",
                    "bin_sett": "{bin_cutoffs=49,59,69,79;bin_repr_vals=0,1,2,3,4}",
                    "bin_format": "%1.0f",
                    "remove_origin": "0",
                    "one_hot": "1",
                    "keep_original_val": "1"
                },
                //substraction of intersecting conditioins:
                {
                    "fp_type": "do_calc",
                    "calc_type": "and",
                    "source_feature_names": "DiabetesNComplx,DiabetesWComplx",
                    "name": "Double_Diabetes"
                },
                {
                    "fp_type": "do_calc",
                    "calc_type": "and",
                    "source_feature_names": "MildLiver,SevereLiver",
                    "name": "Double_Liver"
                },
                {
                    "fp_type": "do_calc",
                    "calc_type": "and",
                    "source_feature_names": "Cancers,Metastatic",
                    "name": "Double_Cancer"
                }
            ]
        },
        {
            "action_type": "feat_processor",
            "fp_type": "do_calc",
            "calc_type": "sum",
            "source_feature_names": "Age.BINNED_1,Age.BINNED_2,Age.BINNED_3,Age.BINNED_4,MI,CHF,PVD,CerebrovascularD,Dementia,ChronicPulmD,RheumaticD,PepticUlcer,MildLiver,SevereLiver,DiabetesNComplx,DiabetesWComplx,XPlegia,Renal,Cancers,HIV,Leukemia,Lymphoma,Double_Diabetes,Double_Liver,Metastatic,Double_Cancer",
            "weights": "1,2,3,4,1,1,1,1,1,1,1,1,1,3,1,2,2,2,2,2,2,6,-1,-1,6,-2",
            "name": "Charlson",
            "duplicate": "0"
        }
    ]
}