TFL Gallery / t-eff-adas-wk24

t-eff-adas-wk24

Discovered on disk but not present in site/config.json.

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Slug: t-eff-adas-wk24
Regulatory ID: —
Type: Table
E3 position: unassigned
Status: built
Current iteration: v001
Datasets: —
Evidence: not yet generated
Requirements: —
Used in: Clinical Study Report Table 14.2.1
Post-Text Display Package Table 14.2.1
Abbreviated Clinical Study Report (ICH E3) Table 14.2.1

Generated by the same pipeline run that wrote the ARD and the HTML above, from the same rendered cells; the short hash is the manifest's record of the file.

t-eff-adas-wk24 · post_text variant · study CDISCPILOT01 · data cut-off 2015-02-17

	Placebo (N=79)	Xanomeline Low Dose (N=81)	Xanomeline High Dose (N=74)
Primary Endpoint Analysis: ADAS-Cog (11) - Change from Baseline to Week 24 - LOCF
Study CDISCPILOT01 — Efficacy Analysis Set
Baseline
n	79	81	74
Mean (SD)	24.1 (12.19)	24.4 (12.92)	21.3 (11.74)
Median (Range)	21.0 (5;61)	21.0 (5;57)	18.0 (3;57)
Week 24
n	79	81	74
Mean (SD)	26.7 (13.79)	26.4 (13.18)	22.8 (12.48)
Median (Range)	24.0 (5;62)	25.0 (6;62)	20.0 (3;62)
Change from baseline
n	79	81	74
Mean (SD)	2.5 (5.80)	2.0 (5.55)	1.5 (4.26)
Median (Range)	2.0 (-11;16)	2.0 (-11;17)	1.0 (-7;13)
Statistical comparison of the change from baseline
p-value (dose response) [1][2]			0.245
p-value (Xanomeline - Placebo) [1][3]		0.569	0.233
Difference of LS means (SE)		-0.5 (0.82)	-1.0 (0.84)
95% CI		(-2.1;1.1)	(-2.7;0.7)
p-value (Xanomeline High - Xanomeline Low) [1][3]			0.520
Difference of LS means (SE)			-0.5 (0.84)
95% CI			(-2.2;1.1)
[1] Based on an analysis of covariance (ANCOVA) model with treatment and site group as factors and the baseline score as a covariate.
[2] Test for a non-zero coefficient for treatment (dose) as a continuous variable.
[3] Pairwise comparison with treatment as a categorical variable; p-values are not adjusted for multiple comparisons.
Missing post-baseline values are imputed by last observation carried forward, over assessments assigned to visit windows (CDISCPILOT01 statistical analysis plan, sections 8.1 and 8.2).
Treatment columns are planned treatment (TRTP), which is how the CDISCPILOT01 reference report presents them.
CDISCPILOT01 states no data cut-off date. The date shown is the latest ADAS-Cog assessment date present in the vendored ADaM package.
Source: adqsadas (ADAS-Cog (11) total score, PARAMCD ACTOT) and adsl, from the CDISC pilot's own ADaM package (phuse-org/phuse-scripts, MIT). Analysis as specified in the CDISCPILOT01 statistical analysis plan, section 10.1.1. Reference report display: Table 14-3.01. Data cut-off: 2015-02-17.
open.csr display t-eff-adas-wk24 (post_text variant); generated from the committed ARD.

Rendered from outputs/t-eff-adas-wk24/v001/table.html.

analysis	group1	group1_level	group2	group2_level	variable	variable_level	context	stat_name	stat_label	warning	error	stat
population	TRTP	Placebo	—	—	USUBJID	—	population	N	N	—	—	79
population	TRTP	Xanomeline High Dose	—	—	USUBJID	—	population	N	N	—	—	74
population	TRTP	Xanomeline Low Dose	—	—	USUBJID	—	population	N	N	—	—	81
summary	TRTP	Placebo	—	—	BASE	—	continuous	N	N	—	—	79
summary	TRTP	Placebo	—	—	BASE	—	continuous	mean	Mean	—	—	24.121780881711
summary	TRTP	Placebo	—	—	BASE	—	continuous	sd	SD	—	—	12.1863695136042
summary	TRTP	Placebo	—	—	BASE	—	continuous	median	Median	—	—	21
summary	TRTP	Placebo	—	—	BASE	—	continuous	p25	Q1	—	—	15
summary	TRTP	Placebo	—	—	BASE	—	continuous	p75	Q3	—	—	31
summary	TRTP	Placebo	—	—	BASE	—	continuous	min	Min	—	—	5
summary	TRTP	Placebo	—	—	BASE	—	continuous	max	Max	—	—	61
summary	TRTP	Placebo	—	—	AVAL	—	continuous	N	N	—	—	79
summary	TRTP	Placebo	—	—	AVAL	—	continuous	mean	Mean	—	—	26.6665211697948
summary	TRTP	Placebo	—	—	AVAL	—	continuous	sd	SD	—	—	13.7942934074663
summary	TRTP	Placebo	—	—	AVAL	—	continuous	median	Median	—	—	24
summary	TRTP	Placebo	—	—	AVAL	—	continuous	p25	Q1	—	—	17
summary	TRTP	Placebo	—	—	AVAL	—	continuous	p75	Q3	—	—	32
summary	TRTP	Placebo	—	—	AVAL	—	continuous	min	Min	—	—	5
summary	TRTP	Placebo	—	—	AVAL	—	continuous	max	Max	—	—	61.551724137931
summary	TRTP	Placebo	—	—	CHG	—	continuous	N	N	—	—	79
summary	TRTP	Placebo	—	—	CHG	—	continuous	mean	Mean	—	—	2.54474028808381
summary	TRTP	Placebo	—	—	CHG	—	continuous	sd	SD	—	—	5.80389919656814
summary	TRTP	Placebo	—	—	CHG	—	continuous	median	Median	—	—	2
summary	TRTP	Placebo	—	—	CHG	—	continuous	p25	Q1	—	—	-1
summary	TRTP	Placebo	—	—	CHG	—	continuous	p75	Q3	—	—	6
summary	TRTP	Placebo	—	—	CHG	—	continuous	min	Min	—	—	-11
summary	TRTP	Placebo	—	—	CHG	—	continuous	max	Max	—	—	16
summary	TRTP	Xanomeline High Dose	—	—	BASE	—	continuous	N	N	—	—	74
summary	TRTP	Xanomeline High Dose	—	—	BASE	—	continuous	mean	Mean	—	—	21.2972972972973
summary	TRTP	Xanomeline High Dose	—	—	BASE	—	continuous	sd	SD	—	—	11.7365250390648
summary	TRTP	Xanomeline High Dose	—	—	BASE	—	continuous	median	Median	—	—	18
summary	TRTP	Xanomeline High Dose	—	—	BASE	—	continuous	p25	Q1	—	—	13
summary	TRTP	Xanomeline High Dose	—	—	BASE	—	continuous	p75	Q3	—	—	27
summary	TRTP	Xanomeline High Dose	—	—	BASE	—	continuous	min	Min	—	—	3
summary	TRTP	Xanomeline High Dose	—	—	BASE	—	continuous	max	Max	—	—	57
summary	TRTP	Xanomeline High Dose	—	—	AVAL	—	continuous	N	N	—	—	74
summary	TRTP	Xanomeline High Dose	—	—	AVAL	—	continuous	mean	Mean	—	—	22.7677850264057
summary	TRTP	Xanomeline High Dose	—	—	AVAL	—	continuous	sd	SD	—	—	12.4835803751227
summary	TRTP	Xanomeline High Dose	—	—	AVAL	—	continuous	median	Median	—	—	20
summary	TRTP	Xanomeline High Dose	—	—	AVAL	—	continuous	p25	Q1	—	—	14
summary	TRTP	Xanomeline High Dose	—	—	AVAL	—	continuous	p75	Q3	—	—	31
summary	TRTP	Xanomeline High Dose	—	—	AVAL	—	continuous	min	Min	—	—	3
summary	TRTP	Xanomeline High Dose	—	—	AVAL	—	continuous	max	Max	—	—	61.551724137931
summary	TRTP	Xanomeline High Dose	—	—	CHG	—	continuous	N	N	—	—	74
summary	TRTP	Xanomeline High Dose	—	—	CHG	—	continuous	mean	Mean	—	—	1.47048772910842
summary	TRTP	Xanomeline High Dose	—	—	CHG	—	continuous	sd	SD	—	—	4.26238487169685
summary	TRTP	Xanomeline High Dose	—	—	CHG	—	continuous	median	Median	—	—	1
summary	TRTP	Xanomeline High Dose	—	—	CHG	—	continuous	p25	Q1	—	—	-1
summary	TRTP	Xanomeline High Dose	—	—	CHG	—	continuous	p75	Q3	—	—	4
summary	TRTP	Xanomeline High Dose	—	—	CHG	—	continuous	min	Min	—	—	-7
summary	TRTP	Xanomeline High Dose	—	—	CHG	—	continuous	max	Max	—	—	13
summary	TRTP	Xanomeline Low Dose	—	—	BASE	—	continuous	N	N	—	—	81
summary	TRTP	Xanomeline Low Dose	—	—	BASE	—	continuous	mean	Mean	—	—	24.4074074074074
summary	TRTP	Xanomeline Low Dose	—	—	BASE	—	continuous	sd	SD	—	—	12.9224478515241
summary	TRTP	Xanomeline Low Dose	—	—	BASE	—	continuous	median	Median	—	—	21
summary	TRTP	Xanomeline Low Dose	—	—	BASE	—	continuous	p25	Q1	—	—	15
summary	TRTP	Xanomeline Low Dose	—	—	BASE	—	continuous	p75	Q3	—	—	30
summary	TRTP	Xanomeline Low Dose	—	—	BASE	—	continuous	min	Min	—	—	5
summary	TRTP	Xanomeline Low Dose	—	—	BASE	—	continuous	max	Max	—	—	56.7241379310345
summary	TRTP	Xanomeline Low Dose	—	—	AVAL	—	continuous	N	N	—	—	81
summary	TRTP	Xanomeline Low Dose	—	—	AVAL	—	continuous	mean	Mean	—	—	26.4027245636441
summary	TRTP	Xanomeline Low Dose	—	—	AVAL	—	continuous	sd	SD	—	—	13.1806548367334
summary	TRTP	Xanomeline Low Dose	—	—	AVAL	—	continuous	median	Median	—	—	25
summary	TRTP	Xanomeline Low Dose	—	—	AVAL	—	continuous	p25	Q1	—	—	18
summary	TRTP	Xanomeline Low Dose	—	—	AVAL	—	continuous	p75	Q3	—	—	36
summary	TRTP	Xanomeline Low Dose	—	—	AVAL	—	continuous	min	Min	—	—	6
summary	TRTP	Xanomeline Low Dose	—	—	AVAL	—	continuous	max	Max	—	—	62
summary	TRTP	Xanomeline Low Dose	—	—	CHG	—	continuous	N	N	—	—	81
summary	TRTP	Xanomeline Low Dose	—	—	CHG	—	continuous	mean	Mean	—	—	1.9953171562367
summary	TRTP	Xanomeline Low Dose	—	—	CHG	—	continuous	sd	SD	—	—	5.55278623671741
summary	TRTP	Xanomeline Low Dose	—	—	CHG	—	continuous	median	Median	—	—	2
summary	TRTP	Xanomeline Low Dose	—	—	CHG	—	continuous	p25	Q1	—	—	-1
summary	TRTP	Xanomeline Low Dose	—	—	CHG	—	continuous	p75	Q3	—	—	5
summary	TRTP	Xanomeline Low Dose	—	—	CHG	—	continuous	min	Min	—	—	-11
summary	TRTP	Xanomeline Low Dose	—	—	CHG	—	continuous	max	Max	—	—	17
ancova	TRTP	Xanomeline High Dose	—	—	CHG	dose_response	ancova	pvalue	pvalue	—	—	0.244705673868498
ancova	TRTP	Xanomeline High Dose	—	—	CHG	dose_response	ancova	n_model	n_model	—	—	234
ancova	TRTP	Xanomeline Low Dose	—	—	CHG	xan_vs_placebo	ancova	estimate	estimate	—	—	-0.466782357500738
ancova	TRTP	Xanomeline Low Dose	—	—	CHG	xan_vs_placebo	ancova	se	se	—	—	0.818042222283684
ancova	TRTP	Xanomeline Low Dose	—	—	CHG	xan_vs_placebo	ancova	pvalue	pvalue	—	—	0.568846971341774
ancova	TRTP	Xanomeline Low Dose	—	—	CHG	xan_vs_placebo	ancova	lcl	lcl	—	—	-2.07898454398439
ancova	TRTP	Xanomeline Low Dose	—	—	CHG	xan_vs_placebo	ancova	ucl	ucl	—	—	1.14541982898292
ancova	TRTP	Xanomeline Low Dose	—	—	CHG	xan_vs_placebo	ancova	n_model	n_model	—	—	234
ancova	TRTP	Xanomeline High Dose	—	—	CHG	xan_vs_placebo	ancova	estimate	estimate	—	—	-1.00601359773133
ancova	TRTP	Xanomeline High Dose	—	—	CHG	xan_vs_placebo	ancova	se	se	—	—	0.840529356750352
ancova	TRTP	Xanomeline High Dose	—	—	CHG	xan_vs_placebo	ancova	pvalue	pvalue	—	—	0.232641095885767
ancova	TRTP	Xanomeline High Dose	—	—	CHG	xan_vs_placebo	ancova	lcl	lcl	—	—	-2.66253355457861
ancova	TRTP	Xanomeline High Dose	—	—	CHG	xan_vs_placebo	ancova	ucl	ucl	—	—	0.650506359115943
ancova	TRTP	Xanomeline High Dose	—	—	CHG	xan_vs_placebo	ancova	n_model	n_model	—	—	234
ancova	TRTP	Xanomeline High Dose	—	—	CHG	high_vs_low	ancova	estimate	estimate	—	—	-0.539231240230596
ancova	TRTP	Xanomeline High Dose	—	—	CHG	high_vs_low	ancova	se	se	—	—	0.836108901551478
ancova	TRTP	Xanomeline High Dose	—	—	CHG	high_vs_low	ancova	pvalue	pvalue	—	—	0.519644870828631
ancova	TRTP	Xanomeline High Dose	—	—	CHG	high_vs_low	ancova	lcl	lcl	—	—	-2.18703933925105
ancova	TRTP	Xanomeline High Dose	—	—	CHG	high_vs_low	ancova	ucl	ucl	—	—	1.10857685878985
ancova	TRTP	Xanomeline High Dose	—	—	CHG	high_vs_low	ancova	n_model	n_model	—	—	234

95 rows, one per computed statistic.

Schema: opencsr/ard/v1
Generated: 2026-08-27T02:21:19Z
Spec hash: sha256:b1293042583d96e58d1cbba3fb184d33bfc6e72be390f27c43871c6cfe43674a
Display hash: sha256:e51fda295f38f7b0b60a675f81eaf78d6a17790a268dc982cd33aaa94d61d0ab
ARD file: outputs/t-eff-adas-wk24/v001/ard.json
ARD hash: sha256:7769370093c068677ce8aaf425e73844d343fb33524cfe9280e10792079531c3

Source datasets

Dataset	Rows	Package	Hash
adsl	254	phuse-org/phuse-scripts:data/adam 398a6d33ced9359ffb58c46650a6d488811176b1	sha256:6534192e6ae2a8789015148d2068ecdd8421791ea6d7f9cc307fef1db97945f9
adqsadas	12463	phuse-org/phuse-scripts:data/adam 398a6d33ced9359ffb58c46650a6d488811176b1	sha256:0f3e481baf734dc3e5ce7373d255269c2285400ff5bee77be525d832bade80cf

Environment

R 4.3.3 · Darwin 23.6.0 · cards 0.6.1 · cardx 0.2.5 · gtsummary 2.3.0 · gt 1.0.0 · dplyr 1.1.4 · pharmaverseadam 1.1.0 · jsonlite 2.0.0 · yaml 2.3.10 · digest 0.6.37

library/tfl/t-eff-adas-wk24/analysis.yaml

id: t-eff-adas-wk24
title: "Primary Endpoint Analysis: ADAS-Cog (11) - Change from Baseline to Week 24 - LOCF"
regulatory_id: EFT01
type: table
dataset: adqsadas
analysis_set: efficacy
denominator: adsl
sources: phuse
group:
  - TRTP
total: false
analyses:
  - name: population
    method: continuous
    custom: population_n
    label: "Subjects in the analysis population"
    filter: "PARAMCD == 'ACTOT'"
  - name: summary
    method: continuous
    label: "ADAS-Cog (11) total score at baseline, at Week 24, and its change"
    variables: [BASE, AVAL, CHG]
    filter: "PARAMCD == 'ACTOT' & ANL01FL == 'Y' & AVISIT == 'Week 24'"
  - name: ancova
    method: continuous
    custom: ancova_change
    label: "ANCOVA of the change from baseline to Week 24"
    variables: [CHG]
    filter: "PARAMCD == 'ACTOT' & ANL01FL == 'Y' & AVISIT == 'Week 24'"
    response: CHG
    covariates: [BASE]
    factors: [SITEGR1]
    treatment: TRTP
    treatment_levels: ["Placebo", "Xanomeline Low Dose", "Xanomeline High Dose"]
    dose: TRTPN
    conf_level: 0.95
    contrasts:
      - { name: dose_response, type: dose, column: "Xanomeline High Dose" }
      - { name: xan_vs_placebo, type: pairwise, test: "Xanomeline Low Dose",
          reference: "Placebo", column: "Xanomeline Low Dose" }
      - { name: xan_vs_placebo, type: pairwise, test: "Xanomeline High Dose",
          reference: "Placebo", column: "Xanomeline High Dose" }
      - { name: high_vs_low, type: pairwise, test: "Xanomeline High Dose",
          reference: "Xanomeline Low Dose", column: "Xanomeline High Dose" }

library/tfl/t-eff-adas-wk24/display.yaml

id: t-eff-adas-wk24
title: "Primary Endpoint Analysis: ADAS-Cog (11) - Change from Baseline to Week 24 - LOCF"
study: CDISCPILOT01
population_label: "Efficacy Analysis Set"
cutoff: "2015-02-17"
source: "Source: adqsadas (ADAS-Cog (11) total score, PARAMCD ACTOT) and adsl, from the CDISC pilot's own ADaM package (phuse-org/phuse-scripts, MIT). Analysis as specified in the CDISCPILOT01 statistical analysis plan, section 10.1.1. Reference report display: Table 14-3.01. Data cut-off: 2015-02-17."
footnotes:
  - "[1] Based on an analysis of covariance (ANCOVA) model with treatment and site group as factors and the baseline score as a covariate."
  - "[2] Test for a non-zero coefficient for treatment (dose) as a continuous variable."
  - "[3] Pairwise comparison with treatment as a categorical variable; p-values are not adjusted for multiple comparisons."
  - "Missing post-baseline values are imputed by last observation carried forward, over assessments assigned to visit windows (CDISCPILOT01 statistical analysis plan, sections 8.1 and 8.2)."
  - "Treatment columns are planned treatment (TRTP), which is how the CDISCPILOT01 reference report presents them."
  - "CDISCPILOT01 states no data cut-off date. The date shown is the latest ADAS-Cog assessment date present in the vendored ADaM package."
columns:
  order: ["Placebo", "Xanomeline Low Dose", "Xanomeline High Dose"]
format:
  mean_sd: "{mean} ({sd})"
  median_range: "{median} ({min};{max})"
  est_se: "{estimate} ({se})"
  ci: "({lcl};{ucl})"
  p_value: "{pvalue}"
  digits:
    mean: 1
    sd: 2
    median: 1
    min: 0
    max: 0
    estimate: 1
    se: 2
    lcl: 1
    ucl: 1
    pvalue: 3
rows:
  - { label: "Baseline", section: true }
  - { analysis: summary, variable: BASE, pattern: "N", label: "n", indent: 1 }
  - { analysis: summary, variable: BASE, pattern: mean_sd, label: "Mean (SD)", indent: 1 }
  - { analysis: summary, variable: BASE, pattern: median_range, label: "Median (Range)", indent: 1 }
  - { label: "Week 24", section: true }
  - { analysis: summary, variable: AVAL, pattern: "N", label: "n", indent: 1 }
  - { analysis: summary, variable: AVAL, pattern: mean_sd, label: "Mean (SD)", indent: 1 }
  - { analysis: summary, variable: AVAL, pattern: median_range, label: "Median (Range)", indent: 1 }
  - { label: "Change from baseline", section: true }
  - { analysis: summary, variable: CHG, pattern: "N", label: "n", indent: 1 }
  - { analysis: summary, variable: CHG, pattern: mean_sd, label: "Mean (SD)", indent: 1 }
  - { analysis: summary, variable: CHG, pattern: median_range, label: "Median (Range)", indent: 1 }
  - { label: "Statistical comparison of the change from baseline", section: true }
  - { analysis: ancova, variable: CHG, level: dose_response, pattern: p_value,
      label: "p-value (dose response) [1][2]", indent: 1 }
  - { analysis: ancova, variable: CHG, level: xan_vs_placebo, pattern: p_value,
      label: "p-value (Xanomeline - Placebo) [1][3]", indent: 1 }
  - { analysis: ancova, variable: CHG, level: xan_vs_placebo, pattern: est_se,
      label: "Difference of LS means (SE)", indent: 2 }
  - { analysis: ancova, variable: CHG, level: xan_vs_placebo, pattern: ci,
      label: "95% CI", indent: 2 }
  - { analysis: ancova, variable: CHG, level: high_vs_low, pattern: p_value,
      label: "p-value (Xanomeline High - Xanomeline Low) [1][3]", indent: 1 }
  - { analysis: ancova, variable: CHG, level: high_vs_low, pattern: est_se,
      label: "Difference of LS means (SE)", indent: 2 }
  - { analysis: ancova, variable: CHG, level: high_vs_low, pattern: ci,
      label: "95% CI", indent: 2 }
variants:
  post_text: {}

library/tfl/t-eff-adas-wk24/custom.R

# Display-specific statistics (contract section 2).
#
# Both functions are thin wrappers: the statistics themselves live in
# {opencsr} so that the seven ADAS-Cog displays share one tested
# implementation, and every model term is declared in this display's
# analysis.yaml rather than written in code.

ancova_change <- function(data, spec, denominator = NULL) {
  opencsr::ard_ancova(data, spec, denominator)
}

population_n <- function(data, spec, denominator = NULL) {
  opencsr::ard_population_n(data, spec, denominator)
}

Every iteration is kept: outputs/t-eff-adas-wk24/vNNN/ holds the spec snapshot, the ARD, the rendered output, and a manifest recording who regenerated it, why, and from which commit.