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Closes #84 implement pharmaverseadam::adlb for lab test suite (#98)
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Closes #84:

Listings are done (as of 10JAN2024):
- [x] test-listing_lbl01.R
- [x] test-listing_lbl01_rls.R
- [x] test-listing_lbl02a.R
- [x] test-listing_lbl02a_rls.R
- [x] test-listing_lbl02b.R

Tables are in progress:
- [x] test-table_lbt01.R
- [x] test-table_lbt02.R
- [x] test-table_lbt03.R
- [x] test-table_lbt04.R
- [x] test-table_lbt05.R
- [x] test-table_lbt06.R
- [x] test-table_lbt07.R
- [x] test-table_lbt08.R
- [ ] test-table_lbt09.R - no compatible ADHY
- [ ] test-table_lbt10.R - no ADHY
- [ ] test-table_lbt10_bl.R - no ADHY
- [ ] test-table_lbt11.R - no ADAETTE
- [ ] test-table_lbt11_bl.R - no ADAETTE
- [ ] test-table_lbt12.R - no ADHY
- [ ] test-table_lbt12_bl.R - no ADHY
- [x] test-table_lbt13.R
- [x] test-table_lbt14.R 
- [x] test-table_lbt15.R

---------

Signed-off-by: Zelos Zhu <zelos.zhu@atorusresearch.com>
Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Joe Zhu <sha.joe.zhu@gmail.com>
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3 people authored Jan 17, 2024
1 parent 5e76c18 commit 5ad6cf1
Showing 33 changed files with 4,663 additions and 1,718 deletions.
112 changes: 56 additions & 56 deletions tests/testthat/_snaps/listing_lbl01.md

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112 changes: 56 additions & 56 deletions tests/testthat/_snaps/listing_lbl01_rls.md

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112 changes: 56 additions & 56 deletions tests/testthat/_snaps/listing_lbl02a.md

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114 changes: 57 additions & 57 deletions tests/testthat/_snaps/listing_lbl02a_rls.md

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112 changes: 56 additions & 56 deletions tests/testthat/_snaps/listing_lbl02b.md

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130 changes: 95 additions & 35 deletions tests/testthat/_snaps/table_lbt01.md

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171 changes: 138 additions & 33 deletions tests/testthat/_snaps/table_lbt02.md
Original file line number Diff line number Diff line change
@@ -3,37 +3,142 @@
Code
res
Output
A: Drug X B: Placebo C: Combination
(N=134) (N=134) (N=132)
——————————————————————————————————————————————————————————
BASELINE
n 134 134 132
Mean (SD) 17.7 (9.9) 18.7 (9.8) 19.5 (9.1)
Median 17.5 18.2 19.0
Min - Max 0.0 - 44.1 1.5 - 54.4 0.6 - 39.8
WEEK 1 DAY 8
n 134 134 132
Mean (SD) 16.8 (9.1) 18.9 (9.2) 19.6 (9.3)
Median 16.0 18.2 19.0
Min - Max 0.1 - 36.3 0.7 - 39.9 0.9 - 44.7
WEEK 2 DAY 15
n 134 134 132
Mean (SD) 17.8 (9.6) 18.8 (9.7) 16.5 (8.2)
Median 15.9 18.0 17.0
Min - Max 0.4 - 44.3 0.2 - 44.3 0.3 - 34.7
WEEK 3 DAY 22
n 134 134 132
Mean (SD) 18.4 (9.3) 17.6 (9.6) 16.8 (9.5)
Median 18.1 17.7 15.1
Min - Max 0.6 - 41.7 0.0 - 38.6 0.5 - 39.2
WEEK 4 DAY 29
n 134 134 132
Mean (SD) 19.2 (11.0) 17.2 (10.6) 17.9 (9.3)
Median 17.4 15.9 17.7
Min - Max 0.9 - 54.2 0.4 - 48.0 0.2 - 41.3
WEEK 5 DAY 36
n 134 134 132
Mean (SD) 19.2 (9.5) 18.0 (9.9) 18.5 (9.4)
Median 19.8 18.3 19.3
Min - Max 0.0 - 43.4 0.1 - 40.6 0.0 - 37.5
Placebo Xanomeline High Dose Xanomeline Low Dose
(N=86) (N=84) (N=84)
————————————————————————————————————————————————————————————————————————————————
Baseline
n 86 84 82
Mean (SD) 17.6 (9.2) 19.2 (10.0) 18.0 (8.7)
Median 15.0 16.0 17.0
Min - Max 7.0 - 69.0 6.0 - 64.0 5.0 - 70.0
Week 2
n 83 78 80
Mean (SD) 18.0 (12.5) 21.0 (8.9) 20.9 (10.5)
Median 15.0 18.5 19.0
Min - Max 6.0 - 104.0 8.0 - 49.0 5.0 - 88.0
POST-BASELINE MAXIMUM
n 83 73 74
Mean (SD) 23.9 (18.1) 26.5 (16.1) 24.8 (13.2)
Median 19.0 23.0 21.5
Min - Max 8.0 - 124.0 11.0 - 129.0 12.0 - 88.0
Week 4
n 79 72 72
Mean (SD) 18.7 (12.9) 21.3 (9.5) 17.5 (7.7)
Median 16.0 20.0 16.0
Min - Max 6.0 - 107.0 8.0 - 61.0 5.0 - 62.0
Week 6
n 73 66 62
Mean (SD) 17.0 (9.9) 21.2 (9.5) 17.0 (8.0)
Median 15.0 19.0 16.0
Min - Max 4.0 - 76.0 10.0 - 60.0 5.0 - 57.0
Week 8
n 72 56 60
Mean (SD) 16.7 (9.3) 22.8 (17.5) 17.6 (7.9)
Median 15.0 18.0 17.0
Min - Max 7.0 - 63.0 10.0 - 129.0 4.0 - 54.0
Week 12
n 67 50 51
Mean (SD) 18.0 (9.2) 21.0 (10.2) 18.5 (12.7)
Median 16.0 19.0 15.0
Min - Max 6.0 - 64.0 9.0 - 70.0 9.0 - 88.0
Week 16
n 68 37 42
Mean (SD) 17.1 (7.4) 19.6 (7.6) 17.3 (7.5)
Median 15.0 19.0 16.0
Min - Max 5.0 - 48.0 7.0 - 38.0 6.0 - 43.0
POST-BASELINE MINIMUM
n 83 73 74
Mean (SD) 13.4 (10.4) 16.1 (5.6) 15.5 (7.6)
Median 12.0 15.0 14.0
Min - Max 3.0 - 95.0 7.0 - 35.0 4.0 - 54.0
Week 20
n 65 31 30
Mean (SD) 16.1 (6.6) 19.6 (6.8) 16.7 (6.3)
Median 14.0 19.0 15.0
Min - Max 7.0 - 48.0 9.0 - 35.0 7.0 - 37.0
Week 24
n 57 30 26
Mean (SD) 17.9 (15.6) 21.0 (8.7) 18.2 (9.2)
Median 14.0 18.5 16.0
Min - Max 5.0 - 124.0 9.0 - 43.0 7.0 - 48.0
Week 26
n 57 27 25
Mean (SD) 16.0 (6.0) 18.9 (7.0) 17.8 (9.5)
Median 15.0 18.0 15.0
Min - Max 3.0 - 31.0 8.0 - 39.0 7.0 - 53.0
POST-BASELINE LAST
n 83 73 74
Mean (SD) 16.6 (10.8) 18.9 (6.5) 19.2 (8.6)
Median 14.0 18.0 17.0
Min - Max 3.0 - 95.0 8.0 - 43.0 7.0 - 54.0
Unscheduled 6.1
n 1 0 0
Mean (SD) 17.0 (NA) NA NA
Median 17.0 NA NA
Min - Max 17.0 - 17.0 NA NA
Unscheduled 5.1
n 1 0 1
Mean (SD) 73.0 (NA) NA 16.0 (NA)
Median 73.0 NA 16.0
Min - Max 73.0 - 73.0 NA 16.0 - 16.0
Unscheduled 1.1
n 8 7 7
Mean (SD) 22.1 (13.8) 22.4 (17.5) 23.0 (12.2)
Median 17.0 16.0 19.0
Min - Max 14.0 - 55.0 12.0 - 61.0 11.0 - 43.0
Unscheduled 4.1
n 1 1 1
Mean (SD) 95.0 (NA) 18.0 (NA) 10.0 (NA)
Median 95.0 18.0 10.0
Min - Max 95.0 - 95.0 18.0 - 18.0 10.0 - 10.0
Unscheduled 1.3
n 1 0 1
Mean (SD) 11.0 (NA) NA 20.0 (NA)
Median 11.0 NA 20.0
Min - Max 11.0 - 11.0 NA 20.0 - 20.0
Unscheduled 1.2
n 1 1 2
Mean (SD) 18.0 (NA) 14.0 (NA) 13.0 (2.8)
Median 18.0 14.0 13.0
Min - Max 18.0 - 18.0 14.0 - 14.0 11.0 - 15.0
Unscheduled 9.2
n 1 0 0
Mean (SD) 9.0 (NA) NA NA
Median 9.0 NA NA
Min - Max 9.0 - 9.0 NA NA
Ambul Ecg Removal
n 0 0 1
Mean (SD) NA NA 15.0 (NA)
Median NA NA 15.0
Min - Max NA NA 15.0 - 15.0
Unscheduled 4.2
n 1 0 0
Mean (SD) 92.0 (NA) NA NA
Median 92.0 NA NA
Min - Max 92.0 - 92.0 NA NA
Unscheduled 8.2
n 1 1 0
Mean (SD) 13.0 (NA) 42.0 (NA) NA
Median 13.0 42.0 NA
Min - Max 13.0 - 13.0 42.0 - 42.0 NA
Unscheduled 7.1
n 0 1 2
Mean (SD) NA 12.0 (NA) 17.0 (2.8)
Median NA 12.0 17.0
Min - Max NA 12.0 - 12.0 15.0 - 19.0
Retrieval
n 0 0 1
Mean (SD) NA NA 13.0 (NA)
Median NA NA 13.0
Min - Max NA NA 13.0 - 13.0
Unscheduled 12.1
n 1 0 1
Mean (SD) 12.0 (NA) NA 15.0 (NA)
Median 12.0 NA 15.0
Min - Max 12.0 - 12.0 NA 15.0 - 15.0
Unscheduled 13.1
n 0 0 1
Mean (SD) NA NA 20.0 (NA)
Median NA NA 20.0
Min - Max NA NA 20.0 - 20.0

51 changes: 18 additions & 33 deletions tests/testthat/_snaps/table_lbt03.md
Original file line number Diff line number Diff line change
@@ -3,37 +3,22 @@
Code
res
Output
A: Drug X B: Placebo C: Combination
(N=134) (N=134) (N=132)
————————————————————————————————————————————————————————————————
BASELINE
n 134 134 132
Mean (SD) 17.74 (9.93) 18.71 (9.83) 19.46 (9.08)
Median 17.46 18.19 18.97
Min - Max 0.00 - 44.06 1.48 - 54.40 0.57 - 39.81
WEEK 1 DAY 8
n 134 134 132
Mean (SD) -0.99 (13.49) 0.23 (14.26) 0.14 (12.85)
Median -1.28 -1.54 0.06
Min - Max -31.31 - 27.89 -30.72 - 33.92 -32.45 - 38.85
WEEK 2 DAY 15
n 134 134 132
Mean (SD) 0.08 (14.15) 0.11 (14.45) -2.92 (12.64)
Median 0.28 -0.93 -1.11
Min - Max -32.89 - 40.55 -45.93 - 29.85 -28.36 - 23.98
WEEK 3 DAY 22
n 134 134 132
Mean (SD) 0.63 (13.85) -1.06 (13.58) -2.71 (13.22)
Median 1.13 -0.49 -2.66
Min - Max -40.09 - 31.24 -46.30 - 31.38 -30.63 - 26.51
WEEK 4 DAY 29
n 134 134 132
Mean (SD) 1.44 (15.39) -1.48 (15.20) -1.54 (12.63)
Median 0.88 -2.96 -1.53
Min - Max -32.93 - 46.98 -41.45 - 43.08 -30.33 - 27.99
WEEK 5 DAY 36
n 134 134 132
Mean (SD) 1.48 (14.49) -0.69 (14.65) -0.95 (12.92)
Median 2.31 1.82 -2.48
Min - Max -40.08 - 30.07 -47.60 - 26.04 -29.78 - 25.00
Placebo Xanomeline High Dose Xanomeline Low Dose
(N=86) (N=84) (N=84)
—————————————————————————————————————————————————————————————————————————
Baseline
n 86 84 82
Mean (SD) 17.57 (9.22) 19.20 (10.05) 17.96 (8.72)
Median 15.00 16.00 17.00
Min - Max 7.00 - 69.00 6.00 - 64.00 5.00 - 70.00
Week 2
n 83 78 80
Mean (SD) 0.29 (7.80) 1.72 (6.85) 2.78 (7.03)
Median -1.00 2.00 2.50
Min - Max -14.00 - 54.00 -31.00 - 17.00 -28.00 - 22.00
Week 4
n 79 72 72
Mean (SD) 0.80 (8.50) 2.25 (7.00) -0.62 (4.35)
Median 0.00 1.00 0.00
Min - Max -13.00 - 57.00 -28.00 - 21.00 -16.00 - 12.00

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