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Datasets:
electricsheepafrica
/
tb-laboratory-diagnostics

Tasks:
Tabular Classification
Modalities:
Tabular
Text
Formats:
csv
Languages:
English
Size:
10K - 100K
Tags:
laboratory
tuberculosis
GeneXpert
smear-microscopy
diagnostics
Synthetic
Libraries:
Datasets
pandas
Polars
License:
Dataset card Data Studio Files
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id
int64
age
int64
sex
string
hiv_positive
int64
previous_tb
int64
facility_level
string
specimen_type
string
specimen_quality_adequate
int64
smear_done
int64
smear_method
string
genexpert_done
int64
culture_done
int64
xray_done
int64
urine_lam_done
int64
smear_result
string
xpert_result
string
rif_resistance
string
culture_result
string
culture_method
string
dst_done
int64
lpa_done
int64
xray_suggestive
int64
tb_diagnosed
int64
true_tb
int64
tat_primary_hrs
float64
tat_within_target
int64
reagent_stockout
int64
xpert_error_invalid
int64
specimen_referred
int64
treatment_initiated
int64
year
int64
1
39
male
0
0
tertiary
other
0
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
60.6
0
1
0
0
0
2,022
2
23
female
0
0
district
other
0
1
zn_light
1
0
0
0
negative
mtb_not_detected
na
not_done
na
0
0
0
0
0
18.6
1
0
0
0
0
2,020
3
33
male
1
0
health_centre
urine
1
0
none
0
0
1
0
not_done
not_done
na
not_done
na
0
0
0
0
0
134.8
0
1
0
0
0
2,022
4
19
female
0
0
district
sputum
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
40.3
0
0
0
0
0
2,020
5
32
female
1
1
district
sputum
1
1
zn_light
0
0
1
1
negative
not_done
na
not_done
na
0
0
0
0
0
61.2
0
1
0
0
0
2,022
6
42
female
0
0
district
sputum_induced
1
1
led_fluorescence
0
0
1
0
negative
not_done
na
not_done
na
0
0
1
0
1
69.4
0
0
0
0
0
2,020
7
23
female
0
0
district
sputum_induced
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
28.8
0
0
0
0
0
2,019
8
60
male
1
1
health_centre
sputum
0
1
zn_light
1
0
0
0
negative
mtb_not_detected
na
not_done
na
0
0
0
0
0
103
0
0
0
0
0
2,021
9
38
male
0
0
tertiary
urine
0
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
51.2
0
1
0
0
0
2,023
10
21
male
0
0
clinic
pleural_fluid
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
25.3
0
0
0
0
0
2,023
11
33
male
0
0
health_centre
sputum
1
1
led_fluorescence
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
39.6
0
0
0
0
0
2,020
12
24
female
0
0
district
sputum
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
40.6
0
0
0
0
0
2,022
13
35
male
0
0
district
sputum
1
1
led_fluorescence
1
0
0
0
negative
mtb_not_detected
na
not_done
na
0
0
0
0
0
26.9
0
0
0
0
0
2,023
14
31
male
0
1
tertiary
urine
0
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
84.2
0
0
0
0
0
2,023
15
19
male
1
0
clinic
sputum
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
44.9
0
1
0
1
0
2,019
16
38
male
0
0
district
sputum
1
1
zn_light
1
0
1
0
negative
mtb_not_detected
na
not_done
na
0
0
1
0
0
13.8
1
0
0
0
0
2,023
17
17
female
0
0
clinic
pleural_fluid
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
52.4
0
1
0
1
0
2,021
18
39
male
0
0
district
sputum
1
1
led_fluorescence
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
59.8
0
0
0
0
0
2,022
19
35
male
0
0
health_centre
urine
1
1
zn_light
1
0
1
0
negative
mtb_not_detected
na
not_done
na
0
0
0
0
0
33
0
0
0
0
0
2,020
20
21
male
0
0
health_centre
sputum_induced
1
0
none
0
0
0
0
not_done
not_done
na
not_done
na
0
0
0
0
0
71.4
0
1
0
1
0
2,019
21
40
male
0
0
district
urine
0
1
zn_light
1
0
0
0
negative
mtb_not_detected
na
not_done
na
0
0
0
0
0
50.3
0
0
0
0
0
2,023
22
49
male
0
0
clinic
sputum
0
1
zn_light
0
1
0
0
negative
not_done
na
negative
solid_lj
0
0
0
0
0
32.3
0
0
0
0
0
2,023
23
19
female
0
0
clinic
sputum
0
0
none
0
0
1
0
not_done
not_done
na
not_done
na
0
0
0
0
0
87.8
0
0
0
1
0
2,023
24
43
male
1
1
health_centre
pleural_fluid
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
32.7
0
1
0
0
0
2,022
25
36
female
1
0
district
sputum
1
1
zn_light
0
1
0
0
negative
not_done
na
negative
solid_lj
0
0
0
0
0
28.1
0
0
0
0
0
2,023
26
32
male
1
0
district
sputum_induced
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
52
0
0
0
0
0
2,021
27
39
female
0
0
district
sputum_induced
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
1
41.6
0
0
0
0
0
2,021
28
30
male
0
0
district
sputum
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
65.2
0
1
0
0
0
2,023
29
40
male
0
0
district
csf
1
1
zn_light
1
0
1
0
negative
mtb_not_detected
na
not_done
na
0
0
0
0
0
29.8
0
0
0
0
0
2,022
30
31
female
1
0
health_centre
sputum
1
0
none
0
0
0
0
not_done
not_done
na
not_done
na
0
0
0
0
0
193.7
0
0
0
1
0
2,023
31
38
male
1
0
clinic
sputum
1
0
none
0
0
1
0
not_done
not_done
na
not_done
na
0
0
0
0
0
108.7
0
0
0
0
0
2,023
32
37
male
0
0
clinic
sputum
0
0
none
0
0
0
0
not_done
not_done
na
not_done
na
0
0
0
0
0
51.5
0
0
0
0
0
2,019
33
34
female
0
0
district
sputum
1
1
zn_light
0
1
1
0
negative
not_done
na
negative
liquid_mgit
0
0
0
0
0
89.6
0
0
0
0
0
2,023
34
13
female
0
0
tertiary
csf
1
1
led_fluorescence
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
38.8
0
1
0
0
0
2,019
35
29
male
0
0
clinic
sputum
0
0
none
0
0
0
0
not_done
not_done
na
not_done
na
0
0
0
0
1
120.1
0
0
0
1
0
2,019
36
38
female
0
0
health_centre
pleural_fluid
1
0
none
0
1
0
0
not_done
not_done
na
negative
solid_lj
0
0
0
0
0
73.5
0
0
0
0
0
2,020
37
13
male
0
0
health_centre
sputum
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
52.3
0
0
0
1
0
2,022
38
17
male
0
0
district
sputum
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
47.6
0
0
0
0
0
2,020
39
33
male
0
0
health_centre
csf
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
59.2
0
0
0
0
0
2,021
40
44
female
0
0
clinic
pleural_fluid
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
15.6
1
1
0
1
0
2,020
41
23
male
0
0
tertiary
sputum
1
1
zn_light
0
0
0
0
positive
not_done
na
not_done
na
0
0
0
1
1
68.2
0
0
0
0
1
2,022
42
21
male
0
0
clinic
sputum
1
0
none
0
0
1
0
not_done
not_done
na
not_done
na
0
0
0
0
0
54.3
0
0
0
0
0
2,020
43
43
male
0
1
district
sputum
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
62.1
0
0
0
0
0
2,023
44
35
female
0
0
clinic
sputum
0
0
none
0
0
0
0
not_done
not_done
na
not_done
na
0
0
0
0
0
139
0
1
0
1
0
2,021
45
36
male
0
0
health_centre
sputum
0
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
46.8
0
1
0
0
0
2,022
46
35
female
0
0
health_centre
sputum
1
1
zn_light
0
1
0
0
negative
not_done
na
negative
solid_lj
0
0
0
0
0
31.5
0
0
0
0
0
2,022
47
58
male
0
0
health_centre
sputum
1
0
none
0
0
0
0
not_done
not_done
na
not_done
na
0
0
0
0
0
78.5
0
0
0
1
0
2,023
48
28
male
0
0
district
sputum
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
27.3
0
0
0
0
0
2,023
49
24
male
1
0
tertiary
other
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
40.1
0
0
0
0
0
2,020
50
35
male
1
0
health_centre
sputum
0
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
46.9
0
1
0
0
0
2,023
51
35
male
1
0
district
csf
0
0
none
0
0
1
0
not_done
not_done
na
not_done
na
0
0
0
0
0
77.4
0
1
0
0
0
2,023
52
25
male
1
0
district
urine
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
134.5
0
0
0
0
0
2,019
53
35
female
1
0
health_centre
sputum
1
0
none
0
0
1
0
not_done
not_done
na
not_done
na
0
0
0
0
0
62.2
0
0
0
0
0
2,022
54
74
male
0
0
district
sputum
0
0
none
1
0
1
0
not_done
mtb_not_detected
na
not_done
na
0
0
1
0
0
37
0
0
0
0
0
2,022
55
56
male
0
0
clinic
pleural_fluid
1
1
led_fluorescence
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
48
0
0
0
1
0
2,023
56
23
female
1
0
district
sputum
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
23.6
1
0
0
0
0
2,023
57
18
male
0
0
tertiary
sputum
0
0
none
0
0
1
0
not_done
not_done
na
not_done
na
0
0
0
0
0
235.5
0
0
0
0
0
2,021
58
40
female
0
0
health_centre
sputum_induced
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
58
0
0
0
1
0
2,023
59
18
male
0
0
district
sputum
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
48.9
0
0
0
0
0
2,021
60
56
male
0
1
health_centre
urine
1
0
none
0
0
0
0
not_done
not_done
na
not_done
na
0
0
0
0
0
136.1
0
0
0
0
0
2,020
61
28
female
0
0
health_centre
csf
0
0
none
0
0
1
0
not_done
not_done
na
not_done
na
0
0
0
0
0
119.9
0
0
0
1
0
2,023
62
55
male
1
0
clinic
urine
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
98.4
0
1
0
1
0
2,023
63
35
female
0
1
clinic
sputum
1
0
none
0
0
0
0
not_done
not_done
na
not_done
na
0
0
0
0
0
177.2
0
1
0
0
0
2,023
64
57
male
0
1
health_centre
sputum
0
0
none
0
0
0
0
not_done
not_done
na
not_done
na
0
0
0
0
0
83.8
0
0
0
0
0
2,020
65
36
male
1
0
tertiary
sputum
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
42.1
0
0
0
0
0
2,019
66
32
female
1
0
health_centre
csf
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
52.6
0
0
0
1
0
2,022
67
46
male
0
0
clinic
sputum
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
39.1
0
1
0
0
0
2,021
68
33
male
0
0
health_centre
sputum
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
57.6
0
1
0
0
0
2,021
69
52
female
1
0
health_centre
sputum
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
30.9
0
0
0
0
0
2,022
70
28
female
0
1
tertiary
sputum
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
62.4
0
0
0
0
0
2,023
71
43
female
1
0
health_centre
sputum
0
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
111.4
0
0
0
0
0
2,022
72
29
female
0
0
health_centre
sputum_induced
1
0
none
0
0
1
0
not_done
not_done
na
not_done
na
0
0
1
0
0
75.4
0
0
0
0
0
2,020
73
29
female
1
0
clinic
sputum_induced
1
0
none
0
0
0
1
not_done
not_done
na
not_done
na
0
0
0
0
1
71.1
0
0
0
0
0
2,019
74
56
female
0
0
tertiary
pleural_fluid
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
54.6
0
0
0
0
0
2,023
75
26
male
0
0
district
sputum
0
1
led_fluorescence
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
71.8
0
0
0
0
0
2,020
76
43
female
1
0
health_centre
gastric_aspirate
1
1
zn_light
1
0
0
0
negative
mtb_not_detected
na
not_done
na
0
0
0
0
0
9.4
1
1
0
0
0
2,021
77
41
female
1
0
clinic
sputum_induced
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
42.3
0
0
0
0
0
2,019
78
46
female
1
0
clinic
sputum_induced
1
1
led_fluorescence
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
77.6
0
0
0
0
0
2,023
79
18
male
0
0
health_centre
urine
0
0
none
0
0
1
0
not_done
not_done
na
not_done
na
0
0
0
0
0
179.2
0
1
0
0
0
2,021
80
26
female
1
0
district
other
1
1
led_fluorescence
0
1
1
0
negative
not_done
na
negative
liquid_mgit
0
0
0
0
0
47.8
0
1
0
0
0
2,023
81
85
female
0
0
tertiary
sputum
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
72.5
0
1
0
0
0
2,022
82
47
female
1
1
health_centre
sputum
1
0
none
0
0
0
0
not_done
not_done
na
not_done
na
0
0
0
0
0
47.9
0
1
0
0
0
2,019
83
85
male
0
0
tertiary
urine
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
33.4
0
0
0
0
0
2,021
84
51
male
0
0
district
csf
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
112.6
0
1
0
0
0
2,022
85
36
female
0
0
district
sputum
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
27
0
0
0
0
0
2,021
86
27
male
0
0
health_centre
sputum
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
53.3
0
0
0
0
0
2,022
87
16
female
0
0
clinic
pleural_fluid
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
1
26.8
0
1
0
1
0
2,023
88
17
female
0
0
district
sputum
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
1
0
0
35.9
0
0
0
0
0
2,023
89
27
male
1
0
district
other
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
43
0
0
0
0
0
2,021
90
19
male
1
0
clinic
sputum
1
0
none
1
0
0
0
not_done
mtb_not_detected
na
not_done
na
0
0
0
0
0
14.7
1
0
0
0
0
2,023
91
32
female
0
0
health_centre
other
1
0
none
0
0
1
0
not_done
not_done
na
not_done
na
0
0
0
0
0
189.3
0
1
0
0
0
2,023
92
30
male
1
0
district
other
1
1
zn_light
1
0
0
0
negative
mtb_not_detected
na
not_done
na
0
0
0
0
0
42.3
0
0
0
0
0
2,019
93
53
male
0
0
district
pleural_fluid
0
1
led_fluorescence
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
38.1
0
1
0
0
0
2,020
94
35
male
0
0
clinic
other
1
0
none
0
0
0
0
not_done
not_done
na
not_done
na
0
0
0
0
0
39.8
0
0
0
0
0
2,023
95
22
female
0
0
tertiary
sputum
0
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
78.7
0
0
0
0
0
2,023
96
31
male
0
0
health_centre
sputum
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
24.1
0
0
0
0
0
2,020
97
41
female
1
0
tertiary
other
1
1
zn_light
0
0
0
0
negative
not_done
na
not_done
na
0
0
0
0
0
35.9
0
0
0
0
0
2,022
98
33
female
0
0
district
sputum
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
1
0
1
49.8
0
0
0
0
0
2,023
99
34
male
0
0
district
sputum
1
1
zn_light
0
0
1
0
negative
not_done
na
not_done
na
0
0
0
0
0
36
0
0
0
0
0
2,021
100
50
female
0
0
health_centre
sputum
1
0
none
0
0
0
0
not_done
not_done
na
not_done
na
0
0
0
0
0
65.1
0
0
0
1
0
2,021
End of preview. Expand in Data Studio

TB Laboratory Diagnostics

Abstract

Synthetic dataset modeling TB laboratory diagnostic services across three SSA scenarios. Captures GeneXpert, smear microscopy, culture, DST availability, test results, rifampicin resistance detection, turnaround times, and diagnostic yield. Parameterized from WHO TB reports and Xpert validation studies.

Parameterization Evidence

Parameter Value Source Year
Xpert sensitivity 88% (vs culture) Steingart et al. Cochrane 2014
Xpert specificity 99% Steingart et al. 2014
Smear sensitivity 50-60% Steingart et al. 2014
Xpert Rif-R sensitivity 95% Steingart et al. 2014
SSA TB burden 2.5M cases/year (~25% global) WHO Global TB Report 2023
Culture availability SSA <10% facilities WHO 2023
DST coverage <5% new TB cases WHO 2023

Validation

Validation Report

Usage 

from datasets import load_dataset
ds = load_dataset("electricsheepafrica/tb-laboratory-diagnostics", name="smear_primary")
df = ds['train'].to_pandas()

References

  1. WHO (2023). Global Tuberculosis Report
  2. Steingart KR et al. (2014). Xpert MTB/RIF. Cochrane. DOI: 10.1002/14651858.CD009593.pub3
  3. Albert H et al. (2016). Xpert roll-out. BMJ Glob Health. DOI: 10.1136/bmjgh-2016-000138
  4. Parsons LM et al. (2011). Lab diagnosis TB. Clin Microbiol Rev. DOI: 10.1128/CMR.00059-10

License

CC-BY-4.0

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