Last updated on 2025-02-26 14:54:30 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.2.0 | 29.62 | 372.22 | 401.84 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.2.1 | 19.52 | 257.66 | 277.18 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.2.1 | 651.56 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 0.2.1 | 648.75 | ERROR | |||
| r-devel-macos-arm64 | 0.2.1 | 128.00 | OK | |||
| r-devel-macos-x86_64 | 0.2.1 | 308.00 | OK | |||
| r-devel-windows-x86_64 | 0.2.0 | 29.00 | 310.00 | 339.00 | OK | |
| r-patched-linux-x86_64 | 0.2.1 | 31.35 | 350.90 | 382.25 | OK | |
| r-release-linux-x86_64 | 0.2.0 | 25.73 | 347.12 | 372.85 | OK | |
| r-release-macos-arm64 | 0.2.1 | 161.00 | OK | |||
| r-release-macos-x86_64 | 0.2.1 | 296.00 | OK | |||
| r-release-windows-x86_64 | 0.2.0 | 30.00 | 308.00 | 338.00 | OK | |
| r-oldrel-macos-arm64 | 0.2.1 | 177.00 | OK | |||
| r-oldrel-macos-x86_64 | 0.2.1 | 326.00 | OK | |||
| r-oldrel-windows-x86_64 | 0.2.0 | 41.00 | 439.00 | 480.00 | OK |
Version: 0.2.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [276s/405s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(SimplyAgree)
>
> test_check("SimplyAgree")
Bland-Altman Limits of Agreement (LoA) of the Ratio (x/y)
95% LoA @ 5% Alpha-Level
Log-transformed Nested Data
Bias Bias CI Lower LoA Upper LoA LoA CI
1.12 [0.7468, 1.6812] 0.6698 1.874 [0.4569, 2.748]
Coefficient of Variation (%) = 30.0214
MOVER Limits of Agreement (LoA)
95% LoA @ 2.5% Alpha-Level
Nested Data
Average of Both Methods Bias Bias CI Lower LoA Upper LoA
3.905 0.6116 [-1.5669, 2.7901] -2.169 3.392
5.465 0.7226 [-1.5861, 3.0313] -2.058 3.503
7.395 0.8599 [-1.3417, 3.0616] -1.921 3.641
LoA CI
[-9.5109, 10.7341]
[-9.3999, 10.8451]
[-9.2626, 10.9825]
SD of Differences = 1.4188
MOVER Limits of Agreement (LoA) of the Ratio (x/y)
95% LoA @ 5% Alpha-Level
Log-transformed Nested Data
Bias Bias CI Lower LoA Upper LoA LoA CI
1.12 [0.7468, 1.6812] 0.6698 1.874 [0.2558, 4.9087]
Coefficient of Variation (%) = 30.0214
Limit of Agreement = 95%
Nested Data Points (true value may vary)
Hypothesis Test: don't reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7255 -0.6694 2.1204 0.95
Lower LoA -2.1404 -7.5748 -0.5891 0.90
Upper LoA 3.5915 2.0402 9.0259 0.90
Limit of Agreement = 95%
Nested Data Points (true value may vary)
Hypothesis Test: don't reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7255 -0.6694 2.1204 0.95
Lower LoA -2.1404 -7.5748 -0.5891 0.90
Upper LoA 3.5915 2.0402 9.0259 0.90
Limit of Agreement = 95%
Nested Data Points (true value may vary)
Hypothesis Test: don't reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7255 -0.6694 2.1204 0.95
Lower LoA -2.1404 -7.5748 -0.5891 0.90
Upper LoA 3.5915 2.0402 9.0259 0.90
Limit of Agreement = 80%
Nested Data Points (true value may vary)
Hypothesis Test: reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7255 -0.09316 1.5442 0.75
Lower LoA -1.1484 -2.28235 -0.6037 0.50
Upper LoA 2.5995 2.05481 3.7334 0.50
Limit of Agreement = 80%
Nested Data Points (true value may vary)
Hypothesis Test: reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7255 -0.09316 1.5442 0.75
Lower LoA -1.1484 -2.28235 -0.6037 0.50
Upper LoA 2.5995 2.05481 3.7334 0.50
Limit of Agreement = 95%
Binomial proportions test and quantile regression for LoA
agreement lower.ci upper.ci
% within 2.5 0.9444 0.6935 0.9922
Hypothesis Test: don't reject h0
###- Quantile Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Lower LoA -1.12 -1.4705 -0.7695 0.90
Bias 0.04 -0.5362 0.6162 0.95
Upper LoA 2.97 2.1954 3.7446 0.90
Limit of Agreement = 95%
Binomial proportions test and quantile regression for LoA
agreement lower.ci upper.ci
% within 2.5 0.9444 0.6935 0.9922
Hypothesis Test: don't reject h0
###- Quantile Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Lower LoA @ 3.9 -1.52603 -1.9506 -1.10148 0.90
Lower LoA @ 5.24 -0.58334 -0.7497 -0.41701 0.90
Lower LoA @ 7.4 0.93837 0.6407 1.23608 0.90
Bias @ 3.9 -0.73052 -1.3830 -0.07808 0.95
Bias @ 5.24 -0.07238 -0.8096 0.66486 0.95
Bias @ 7.4 0.99000 -0.9752 2.95519 0.95
Upper LoA @ 3.9 0.52353 -1.9981 3.04516 0.90
Upper LoA @ 5.24 2.27008 1.6152 2.92494 0.90
Upper LoA @ 7.4 5.08940 1.8002 8.37859 0.90
MOVER Limits of Agreement (LoA)
95% LoA @ 2.5% Alpha-Level
Data with Replicates
Average of Both Methods Bias Bias CI Lower LoA Upper LoA
3.905 -0.3111 [-8.681, 8.0587] -3.341 2.719
5.382 0.6522 [-3.8839, 5.1882] -2.378 3.682
7.395 1.9651 [-7.7328, 11.6631] -1.065 4.995
LoA CI
[-11.1274, 10.5051]
[-10.1641, 11.4684]
[-8.8511, 12.7814]
SD of Differences = 1.546
Bland-Altman Limits of Agreement (LoA) of the Ratio (x/y)
95% LoA @ 2.5% Alpha-Level
Log-transformed Data with Replicates
Bias Bias CI Lower LoA Upper LoA LoA CI
1.119 [0.6373, 1.9636] 0.639 1.958 [0.3961, 3.1593]
Coefficient of Variation (%) = 33.0697
MOVER Limits of Agreement (LoA) of the Ratio (x/y)
95% LoA @ 2.5% Alpha-Level
Log-transformed Data with Replicates
Bias Bias CI Lower LoA Upper LoA LoA CI
1.119 [0.6373, 1.9636] 0.639 1.958 [0.1511, 8.2835]
Coefficient of Variation (%) = 33.0697
MOVER Limits of Agreement (LoA)
95% LoA @ 2.5% Alpha-Level
Data with Replicates
Bias Bias CI Lower LoA Upper LoA LoA CI
0.7152 [-2.2296, 3.66] -2.232 3.662 [-9.7686, 11.199]
SD of Differences = 1.5036
Limit of Agreement = 95%
Replicate Data Points (true value does not vary)
Warning: hypothesis test likely bogus with proportional bias.
Hypothesis Test: don't reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7035 -1.396 2.803 0.95
Lower LoA -2.0640 -9.011 -0.454 0.95
Upper LoA 3.4710 1.861 10.418 0.95
LoA at average of both measures. Please check plot.
Limit of Agreement = 95%
Replicate Data Points (true value does not vary)
Hypothesis Test: No Hypothesis Test
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7152 -0.6667 2.0971 0.95
Lower LoA -2.2317 -9.7686 -0.4779 0.95
Upper LoA 3.6622 1.9084 11.1990 0.95
Limit of Agreement = 95%
Replicate Data Points (true value does not vary)
Hypothesis Test: don't reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7152 -0.6667 2.0971 0.95
Lower LoA -2.2317 -7.5482 -0.7295 0.90
Upper LoA 3.6622 2.1599 8.9786 0.90
Limit of Agreement = 80%
Replicate Data Points (true value does not vary)
Hypothesis Test: reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7152 -0.09588 1.5263 0.75
Lower LoA -1.2117 -2.31316 -0.6769 0.50
Upper LoA 2.6421 2.10732 3.7436 0.50
Limit of Agreement = 80%
Replicate Data Points (true value does not vary)
Hypothesis Test: reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7152 -0.09588 1.5263 0.75
Lower LoA -1.2117 -2.31316 -0.6769 0.50
Upper LoA 2.6421 2.10732 3.7436 0.50
[1] 79.0000000 0.8022956
Weighted Deming Regression with 95% C.I.
coef bias se df lower.ci upper.ci t p.value
Intercept -0.3251 0.20653 1.9609 8 -4.8470 4.197 -0.1658 0.8724
Slope 1.0309 -0.02537 0.2189 8 0.5261 1.536 0.1413 0.8911
Weighted Deming Regression with 95% C.I.
coef bias se df lower.ci upper.ci t p.value
Intercept 3.4071 -0.05338 1.7556 2 -4.146 10.961 1.941 0.1918
Slope 0.2828 -0.01214 0.3859 2 -1.378 1.943 -1.858 0.2042
95% Limits of Agreement with Parametric Bootstrap 95% Confidence Intervals
Average Condition Measures Estimate Lower CI Upper CI
1 36.67 23C/5.5 Bias 0.3206 0.15866 0.50999
2 36.67 23C/5.5 Lower LoA -0.1665 -0.35850 0.16416
3 36.67 23C/5.5 Upper LoA 0.8078 0.63372 1.06271
4 36.67 33C/5.5 Bias 0.2780 0.04308 0.44716
5 36.67 33C/5.5 Lower LoA -0.1214 -0.35211 0.16832
6 36.67 33C/5.5 Upper LoA 0.6775 0.35132 0.83876
7 36.67 33C/7.5 Bias 0.2812 0.08005 0.52882
8 36.67 33C/7.5 Lower LoA -0.1882 -0.41513 0.22339
9 36.67 33C/7.5 Upper LoA 0.7505 0.40618 0.94256
10 36.93 23C/5.5 Bias 0.2762 0.09452 0.43279
11 36.93 23C/5.5 Lower LoA -0.2109 -0.42886 0.08643
12 36.93 23C/5.5 Upper LoA 0.7634 0.54468 0.88854
13 36.93 33C/5.5 Bias 0.2336 0.07439 0.38684
14 36.93 33C/5.5 Lower LoA -0.1658 -0.32113 0.02001
15 36.93 33C/5.5 Upper LoA 0.6331 0.32082 0.83744
16 36.93 33C/7.5 Bias 0.2368 0.02860 0.40621
17 36.93 33C/7.5 Lower LoA -0.2326 -0.47640 0.07545
18 36.93 33C/7.5 Upper LoA 0.7061 0.45154 0.87547
19 37.29 23C/5.5 Bias 0.2147 -0.13999 0.50590
20 37.29 23C/5.5 Lower LoA -0.2724 -0.67516 0.04306
21 37.29 23C/5.5 Upper LoA 0.7019 0.35388 0.99223
22 37.29 33C/5.5 Bias 0.1721 -0.05788 0.46182
23 37.29 33C/5.5 Lower LoA -0.2273 -0.40434 0.11394
24 37.29 33C/5.5 Upper LoA 0.5715 0.16291 0.88580
25 37.29 33C/7.5 Bias 0.1752 -0.20186 0.40945
26 37.29 33C/7.5 Lower LoA -0.2941 -0.69021 0.02786
27 37.29 33C/7.5 Upper LoA 0.6446 0.22604 0.83207
95% Limits of Agreement with Bootstrap 95% Confidence Intervals
estimate lower.ci upper.ci
Mean Bias 0.2510000 0.1593847 0.3113323
Lower LoA -0.2444893 -0.3529074 -0.1674958
Upper LoA 0.7464893 0.6809332 0.8231947
Coefficient of Variation (%): 19.1
Standard Error of Measurement (SEM): 1.01
Standard Error of the Estimate (SEE): 1.22
Standard Error of Prediction (SEP): 1.9
Intraclass Correlation Coefficients with 95 % C.I.
Model Measures Type ICC Lower CI Upper CI
1 one-way random Agreement ICC1 0.1657 -0.09672 0.6434
2 two-way random Agreement ICC2 0.2898 0.04290 0.6911
3 two-way fixed Consistency ICC3 0.7148 0.41183 0.9258
4 one-way random Avg. Agreement ICC1k 0.4428 -0.54504 0.8783
5 two-way random Avg. Agreement ICC2k 0.6201 0.15204 0.8995
6 two-way fixed Avg. Consistency ICC3k 0.9093 0.73690 0.9804
Coefficient of Variation (%): 18.2
Standard Error of Measurement (SEM): 0.964
Standard Error of the Estimate (SEE): 1.2
Standard Error of Prediction (SEP): 1.8
Intraclass Correlation Coefficients with 95 % C.I.
Model Measures Type ICC Lower CI Upper CI
1 one-way random Agreement ICC1 0.2202 -0.06155 0.6863
2 two-way random Agreement ICC2 0.3327 0.05493 0.7300
3 two-way fixed Consistency ICC3 0.7861 0.52451 0.9470
4 one-way random Avg. Agreement ICC1k 0.5305 -0.30199 0.8974
5 two-way random Avg. Agreement ICC2k 0.6660 0.18865 0.9154
6 two-way fixed Avg. Consistency ICC3k 0.9363 0.81524 0.9862
Coefficient of Variation (%): 18.2 95% C.I. [12.7, 24.4]
Standard Error of Measurement (SEM): 0.964 95% C.I. [0.672, 1.29]
Standard Error of the Estimate (SEE): 1.2 95% C.I. [0.835, 1.6]
Standard Error of Prediction (SEP): 1.8 95% C.I. [1.26, 2.42]
Intraclass Correlation Coefficients
Model Measures Type ICC Lower CI Upper CI
1 one-way random Agreement ICC1 0.2202 -0.06155 0.6863
2 two-way random Agreement ICC2 0.3327 0.05493 0.7300
3 two-way fixed Consistency ICC3 0.7861 0.52451 0.9470
4 one-way random Avg. Agreement ICC1k 0.5305 -0.30199 0.8974
5 two-way random Avg. Agreement ICC2k 0.6660 0.18865 0.9154
6 two-way fixed Avg. Consistency ICC3k 0.9363 0.81524 0.9862
Coefficient of Variation (%): 18.2
Standard Error of Measurement (SEM): 0.964
Standard Error of the Estimate (SEE): 1.2
Standard Error of Prediction (SEP): 1.8
Intraclass Correlation Coefficients with 95 % C.I.
Model Measures Type ICC Lower CI Upper CI
1 one-way random Agreement ICC1 0.2202 -0.06155 0.6863
2 two-way random Agreement ICC2 0.3327 0.05493 0.7300
3 two-way fixed Consistency ICC3 0.7861 0.52451 0.9470
4 one-way random Avg. Agreement ICC1k 0.5305 -0.30199 0.8974
5 two-way random Avg. Agreement ICC2k 0.6660 0.18865 0.9154
6 two-way fixed Avg. Consistency ICC3k 0.9363 0.81524 0.9862
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Bias Bias CI Prediction Interval Tolerance Limits
0.1908 [0.1462, 0.2355] [-0.1578, 0.5395] [-0.2123, 0.594]
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Average of Both Methods Bias Bias CI Prediction Interval
36.38 0.2333 [0.1319, 0.3347] [-0.1275, 0.5941]
36.83 0.1901 [0.1453, 0.2348] [-0.1591, 0.5392]
37.23 0.1512 [0.0552, 0.2472] [-0.2081, 0.5105]
Tolerance Limits
[-0.1844, 0.651]
[-0.2141, 0.5943]
[-0.2648, 0.5672]
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Bias Bias CI Prediction Interval Tolerance Limits
0.1908 [0.1191, 0.2625] [-0.2098, 0.5915] [-0.3803, 0.762]
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Bias Bias CI Prediction Interval Tolerance Limits
0.1907 [0.1284, 0.253] [-0.1828, 0.5642] [-0.2986, 0.68]
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Bias Bias CI Prediction Interval Tolerance Limits
0.1907 [0.1284, 0.253] [-0.1828, 0.5642] [-0.2986, 0.6801]
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Condition Bias Bias CI Prediction Interval Tolerance Limits
AM 0.1581 [0.0786, 0.2377] [-0.2164, 0.5327] [-0.3403, 0.6565]
PM 0.2233 [0.1438, 0.3028] [-0.1513, 0.5979] [-0.2751, 0.7217]
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Condition Bias Bias CI Prediction Interval Tolerance Limits
AM 0.1537 [0.0595, 0.2478] [-0.2919, 0.5993] [-0.3647, 0.7364]
PM 0.2280 [0.1342, 0.3218] [-0.3162, 0.7722] [-0.3617, 0.8177]
Agreement between Measures (Ratio: x/y)
95% Prediction Interval with 95% Tolerance Limits
Average of Both Methods Bias Bias CI Prediction Interval
36.38 1.005 [1.0014, 1.0082] [0.9943, 1.0153]
36.83 1.005 [1.003, 1.0074] [0.9935, 1.0171]
37.23 1.006 [1.0024, 1.0089] [0.9952, 1.0161]
Tolerance Limits
[0.9921, 1.0176]
[0.9877, 1.0231]
[0.9928, 1.0185]
Sympercent Difference between Methods (s%)
95% Prediction Interval with 95% Tolerance Limits
Average of Both Methods Bias Bias CI Prediction Interval
36.38 0.4745 [0.1362, 0.8128] [-0.5679, 1.5169]
36.83 0.5194 [0.3011, 0.7377] [-0.654, 1.6928]
37.23 0.5598 [0.2359, 0.8837] [-0.4811, 1.6007]
Tolerance Limits
[-0.7957, 1.7447]
[-1.2419, 2.2807]
[-0.7182, 1.8378]
Agreement between Measures (Ratio: x/y)
95% Prediction Interval with 95% Tolerance Limits
Condition Average of Both Methods Bias Bias CI Prediction Interval
AM 36.38 1.007 [1.0035, 1.0096] [0.9955, 1.0176]
PM 36.38 1.010 [1.0062, 1.0139] [0.9989, 1.0213]
AM 36.83 1.003 [1.001, 1.0057] [0.992, 1.0149]
PM 36.83 1.007 [1.0047, 1.0091] [0.9927, 1.0213]
AM 37.23 1.001 [0.9967, 1.0045] [0.9895, 1.0117]
PM 37.23 1.004 [1.0015, 1.0066] [0.9929, 1.0153]
Tolerance Limits
[0.9931, 1.0201]
[0.9969, 1.0234]
[0.9882, 1.0188]
[0.9836, 1.0308]
[0.9876, 1.0137]
[0.9897, 1.0186]
Agreement between Measures (Ratio: x/y)
95% Prediction Interval with 95% Tolerance Limits
Condition Average of Both Methods Bias Bias CI Prediction Interval
AM 36.38 1.007 [1.0035, 1.0096] [0.9955, 1.0176]
PM 36.38 1.010 [1.0062, 1.0139] [0.9989, 1.0213]
AM 36.83 1.003 [1.001, 1.0057] [0.992, 1.0149]
PM 36.83 1.007 [1.0047, 1.0091] [0.9927, 1.0213]
AM 37.23 1.001 [0.9967, 1.0045] [0.9895, 1.0117]
PM 37.23 1.004 [1.0015, 1.0066] [0.9929, 1.0153]
Tolerance Limits
[0.9899, 1.022]
[0.9939, 1.0254]
[0.9881, 1.0177]
[0.9904, 1.0239]
[0.985, 1.0159]
[0.9909, 1.0201]
Agreement between Measures (Ratio: x/y)
95% Prediction Interval with 95% Tolerance Limits
Average of Both Methods Bias Bias CI Prediction Interval
36.38 1.005 [1.0014, 1.0082] [0.9943, 1.0153]
36.83 1.005 [1.003, 1.0074] [0.9935, 1.0171]
37.23 1.006 [1.0024, 1.0089] [0.9952, 1.0161]
Tolerance Limits
[0.9901, 1.0215]
[0.9919, 1.0194]
[0.9899, 1.0197]
Limit of Agreement = 95%
###- Shieh Results -###
Exact 90% C.I. [-2.6418, 3.5184]
Hypothesis Test: don't reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.4383 -0.1669 1.044 0.95
Lower LoA -1.9470 -2.8162 -1.078 0.90
Upper LoA 2.8237 1.9545 3.693 0.90
###- Concordance Correlation Coefficient (CCC) -###
CCC: 0.4791, 95% C.I. [0.1276, 0.7237]
[ FAIL 16 | WARN 135 | SKIP 0 | PASS 118 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-agree_nest.R:38:3'): examples from Zou ───────────────────────
nest_test_new$loa$bias not equal to 0.7234979.
1/1 mismatches
[1] 0.723 - 0.723 == -0.000304
── Failure ('test-agree_nest.R:106:3'): examples from Zou ──────────────────────
nest_test_newlog$loa$lower.CL not equal to -0.319.
1/1 mismatches
[1] -0.292 - -0.319 == 0.027
── Failure ('test-agree_nest.R:110:3'): examples from Zou ──────────────────────
nest_test_newlog$loa$lme not equal to 1.030285.
1/1 mismatches
[1] 0.963 - 1.03 == -0.0676
── Failure ('test-agree_nest.R:150:3'): examples from Zou ──────────────────────
c(nest_test_new$loa$bias, nest_test_new$loa$lower_loa, nest_test_new$loa$upper_loa) not equivalent to c(0.7255, -2.14, 3.59).
2/3 mismatches (average diff: 0.152)
[2] -1.99 - -2.14 == 0.151
[3] 3.44 - 3.59 == -0.154
── Failure ('test-agree_nest.R:155:3'): examples from Zou ──────────────────────
c(nest_test_new$loa$lower_loa_ci, nest_test_new$loa$upper_loa_ci) not equivalent to c(-9.8, 11.2).
2/2 mismatches (average diff: 0.626)
[1] -9.15 - -9.8 == 0.649
[2] 10.60 - 11.2 == -0.603
── Failure ('test-loa_mixed.R:28:3'): basic runs ───────────────────────────────
test_bca$loa$estimate not equivalent to `estimates1`.
2/3 mismatches (average diff: 0.0557)
[2] -0.244 - -0.189 == -0.0557
[3] 0.746 - 0.691 == 0.0557
── Failure ('test-loa_mixed.R:31:3'): basic runs ───────────────────────────────
test_bca$var_comp$estimate not equivalent to `estimates2`.
3/3 mismatches (average diff: 0.0305)
[1] 0.155 - 0.168 == -0.0126
[2] 0.200 - 0.149 == 0.0506
[3] 0.253 - 0.224 == 0.0284
── Failure ('test-loa_mixed.R:48:3'): basic runs ───────────────────────────────
test_perc$loa$estimate not equivalent to `estimates1`.
2/3 mismatches (average diff: 0.0557)
[2] -0.244 - -0.189 == -0.0557
[3] 0.746 - 0.691 == 0.0557
── Failure ('test-loa_mixed.R:51:3'): basic runs ───────────────────────────────
test_perc$var_comp$estimate not equivalent to `estimates2`.
3/3 mismatches (average diff: 0.0305)
[1] 0.155 - 0.168 == -0.0126
[2] 0.200 - 0.149 == 0.0506
[3] 0.253 - 0.224 == 0.0284
── Failure ('test-loa_mixed.R:64:3'): basic runs ───────────────────────────────
test_basic$loa$estimate not equivalent to `estimates1`.
2/3 mismatches (average diff: 0.0557)
[2] -0.244 - -0.189 == -0.0557
[3] 0.746 - 0.691 == 0.0557
── Failure ('test-loa_mixed.R:67:3'): basic runs ───────────────────────────────
test_basic$var_comp$estimate not equivalent to `estimates2`.
3/3 mismatches (average diff: 0.0305)
[1] 0.155 - 0.168 == -0.0126
[2] 0.200 - 0.149 == 0.0506
[3] 0.253 - 0.224 == 0.0284
── Failure ('test-loa_mixed.R:80:3'): basic runs ───────────────────────────────
test_norm$loa$estimate not equivalent to `estimates1`.
2/3 mismatches (average diff: 0.0557)
[2] -0.244 - -0.189 == -0.0557
[3] 0.746 - 0.691 == 0.0557
── Failure ('test-loa_mixed.R:83:3'): basic runs ───────────────────────────────
test_norm$var_comp$estimate not equivalent to `estimates2`.
3/3 mismatches (average diff: 0.0305)
[1] 0.155 - 0.168 == -0.0126
[2] 0.200 - 0.149 == 0.0506
[3] 0.253 - 0.224 == 0.0284
── Failure ('test-reli_stats.R:153:3'): Simple Use Run Through ─────────────────
round(test2$icc$icc, 4) not equivalent to round(test2_aov$icc$icc, 4).
6/6 mismatches (average diff: 0.0549)
[1] 0.220 - 0.166 == 0.0545
[2] 0.333 - 0.290 == 0.0429
[3] 0.786 - 0.715 == 0.0713
[4] 0.530 - 0.443 == 0.0877
[5] 0.666 - 0.620 == 0.0459
[6] 0.936 - 0.909 == 0.0270
── Failure ('test-reli_stats.R:194:3'): Simple Use Run Through ─────────────────
round(test3$icc$icc, 4) not equivalent to round(test3_aov$icc$icc, 4).
6/6 mismatches (average diff: 0.0549)
[1] 0.220 - 0.166 == 0.0545
[2] 0.333 - 0.290 == 0.0429
[3] 0.786 - 0.715 == 0.0713
[4] 0.530 - 0.443 == 0.0877
[5] 0.666 - 0.620 == 0.0459
[6] 0.936 - 0.909 == 0.0270
── Failure ('test-reli_stats.R:196:3'): Simple Use Run Through ─────────────────
round(test3$var_comp$percent, 4) not equivalent to round(test3_aov$var_comp$percent, 4).
3/4 mismatches (average diff: 0.0286)
[1] 0.3327 - 0.290 == 0.0429
[2] 0.5768 - 0.595 == -0.0178
[3] 0.0905 - 0.116 == -0.0251
[ FAIL 16 | WARN 135 | SKIP 0 | PASS 118 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.2.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [269s/390s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(SimplyAgree)
>
> test_check("SimplyAgree")
Bland-Altman Limits of Agreement (LoA) of the Ratio (x/y)
95% LoA @ 5% Alpha-Level
Log-transformed Nested Data
Bias Bias CI Lower LoA Upper LoA LoA CI
1.12 [0.7741, 1.6218] 0.6698 1.874 [0.4569, 2.748]
Coefficient of Variation (%) = 30.0214
MOVER Limits of Agreement (LoA)
95% LoA @ 2.5% Alpha-Level
Nested Data
Average of Both Methods Bias Bias CI Lower LoA Upper LoA
3.905 0.6116 [-1.5669, 2.7901] -2.169 3.392
5.465 0.7226 [-1.5861, 3.0313] -2.058 3.503
7.395 0.8599 [-1.3417, 3.0616] -1.921 3.641
LoA CI
[-9.5109, 10.7341]
[-9.3999, 10.8451]
[-9.2626, 10.9825]
SD of Differences = 1.4188
MOVER Limits of Agreement (LoA) of the Ratio (x/y)
95% LoA @ 5% Alpha-Level
Log-transformed Nested Data
Bias Bias CI Lower LoA Upper LoA LoA CI
1.12 [0.7741, 1.6218] 0.6698 1.874 [0.2558, 4.9087]
Coefficient of Variation (%) = 30.0214
Limit of Agreement = 95%
Nested Data Points (true value may vary)
Hypothesis Test: don't reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7255 -0.6694 2.1204 0.95
Lower LoA -2.1404 -7.5748 -0.5891 0.90
Upper LoA 3.5915 2.0402 9.0259 0.90
Limit of Agreement = 95%
Nested Data Points (true value may vary)
Hypothesis Test: don't reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7255 -0.6694 2.1204 0.95
Lower LoA -2.1404 -7.5748 -0.5891 0.90
Upper LoA 3.5915 2.0402 9.0259 0.90
Limit of Agreement = 95%
Nested Data Points (true value may vary)
Hypothesis Test: don't reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7255 -0.6694 2.1204 0.95
Lower LoA -2.1404 -7.5748 -0.5891 0.90
Upper LoA 3.5915 2.0402 9.0259 0.90
Limit of Agreement = 80%
Nested Data Points (true value may vary)
Hypothesis Test: reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7255 -0.09316 1.5442 0.75
Lower LoA -1.1484 -2.28235 -0.6037 0.50
Upper LoA 2.5995 2.05481 3.7334 0.50
Limit of Agreement = 80%
Nested Data Points (true value may vary)
Hypothesis Test: reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7255 -0.09316 1.5442 0.75
Lower LoA -1.1484 -2.28235 -0.6037 0.50
Upper LoA 2.5995 2.05481 3.7334 0.50
Limit of Agreement = 95%
Binomial proportions test and quantile regression for LoA
agreement lower.ci upper.ci
% within 2.5 0.9444 0.6935 0.9922
Hypothesis Test: don't reject h0
###- Quantile Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Lower LoA -1.12 -1.4705 -0.7695 0.90
Bias 0.04 -0.5362 0.6162 0.95
Upper LoA 2.97 2.1954 3.7446 0.90
Limit of Agreement = 95%
Binomial proportions test and quantile regression for LoA
agreement lower.ci upper.ci
% within 2.5 0.9444 0.6935 0.9922
Hypothesis Test: don't reject h0
###- Quantile Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Lower LoA @ 3.9 -1.52603 -1.9506 -1.10148 0.90
Lower LoA @ 5.24 -0.58334 -0.7497 -0.41701 0.90
Lower LoA @ 7.4 0.93837 0.6407 1.23608 0.90
Bias @ 3.9 -0.73052 -1.3830 -0.07808 0.95
Bias @ 5.24 -0.07238 -0.8096 0.66486 0.95
Bias @ 7.4 0.99000 -0.9752 2.95519 0.95
Upper LoA @ 3.9 0.52353 -1.9981 3.04516 0.90
Upper LoA @ 5.24 2.27008 1.6152 2.92494 0.90
Upper LoA @ 7.4 5.08940 1.8002 8.37859 0.90
MOVER Limits of Agreement (LoA)
95% LoA @ 2.5% Alpha-Level
Data with Replicates
Average of Both Methods Bias Bias CI Lower LoA Upper LoA
3.905 -0.3111 [-8.681, 8.0587] -3.341 2.719
5.382 0.6522 [-3.8839, 5.1882] -2.378 3.682
7.395 1.9651 [-7.7328, 11.6631] -1.065 4.995
LoA CI
[-11.1274, 10.5051]
[-10.1641, 11.4684]
[-8.8511, 12.7814]
SD of Differences = 1.546
Bland-Altman Limits of Agreement (LoA) of the Ratio (x/y)
95% LoA @ 2.5% Alpha-Level
Log-transformed Data with Replicates
Bias Bias CI Lower LoA Upper LoA LoA CI
1.119 [0.6373, 1.9636] 0.639 1.958 [0.3961, 3.1593]
Coefficient of Variation (%) = 33.0697
MOVER Limits of Agreement (LoA) of the Ratio (x/y)
95% LoA @ 2.5% Alpha-Level
Log-transformed Data with Replicates
Bias Bias CI Lower LoA Upper LoA LoA CI
1.119 [0.6373, 1.9636] 0.639 1.958 [0.1511, 8.2835]
Coefficient of Variation (%) = 33.0697
MOVER Limits of Agreement (LoA)
95% LoA @ 2.5% Alpha-Level
Data with Replicates
Bias Bias CI Lower LoA Upper LoA LoA CI
0.7152 [-2.2296, 3.66] -2.232 3.662 [-9.7686, 11.199]
SD of Differences = 1.5036
Limit of Agreement = 95%
Replicate Data Points (true value does not vary)
Warning: hypothesis test likely bogus with proportional bias.
Hypothesis Test: don't reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7035 -1.396 2.803 0.95
Lower LoA -2.0640 -9.011 -0.454 0.95
Upper LoA 3.4710 1.861 10.418 0.95
LoA at average of both measures. Please check plot.
Limit of Agreement = 95%
Replicate Data Points (true value does not vary)
Hypothesis Test: No Hypothesis Test
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7152 -0.6667 2.0971 0.95
Lower LoA -2.2317 -9.7686 -0.4779 0.95
Upper LoA 3.6622 1.9084 11.1990 0.95
Limit of Agreement = 95%
Replicate Data Points (true value does not vary)
Hypothesis Test: don't reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7152 -0.6667 2.0971 0.95
Lower LoA -2.2317 -7.5482 -0.7295 0.90
Upper LoA 3.6622 2.1599 8.9786 0.90
Limit of Agreement = 80%
Replicate Data Points (true value does not vary)
Hypothesis Test: reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7152 -0.09588 1.5263 0.75
Lower LoA -1.2117 -2.31316 -0.6769 0.50
Upper LoA 2.6421 2.10732 3.7436 0.50
Limit of Agreement = 80%
Replicate Data Points (true value does not vary)
Hypothesis Test: reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.7152 -0.09588 1.5263 0.75
Lower LoA -1.2117 -2.31316 -0.6769 0.50
Upper LoA 2.6421 2.10732 3.7436 0.50
[1] 79.0000000 0.8022956
Weighted Deming Regression with 95% C.I.
coef bias se df lower.ci upper.ci t p.value
Intercept -0.3251 0.20653 1.9609 8 -4.8470 4.197 -0.1658 0.8724
Slope 1.0309 -0.02537 0.2189 8 0.5261 1.536 0.1413 0.8911
Weighted Deming Regression with 95% C.I.
coef bias se df lower.ci upper.ci t p.value
Intercept 3.4071 -0.05338 1.7556 2 -4.146 10.961 1.941 0.1918
Slope 0.2828 -0.01214 0.3859 2 -1.378 1.943 -1.858 0.2042
95% Limits of Agreement with Parametric Bootstrap 95% Confidence Intervals
Average Condition Measures Estimate Lower CI Upper CI
1 36.67 23C/5.5 Bias 0.3206 0.15866 0.50999
2 36.67 23C/5.5 Lower LoA -0.1665 -0.35850 0.16416
3 36.67 23C/5.5 Upper LoA 0.8078 0.63372 1.06271
4 36.67 33C/5.5 Bias 0.2780 0.04308 0.44716
5 36.67 33C/5.5 Lower LoA -0.1214 -0.35211 0.16832
6 36.67 33C/5.5 Upper LoA 0.6775 0.35132 0.83876
7 36.67 33C/7.5 Bias 0.2812 0.08005 0.52882
8 36.67 33C/7.5 Lower LoA -0.1882 -0.41513 0.22339
9 36.67 33C/7.5 Upper LoA 0.7505 0.40618 0.94256
10 36.93 23C/5.5 Bias 0.2762 0.09452 0.43279
11 36.93 23C/5.5 Lower LoA -0.2109 -0.42886 0.08643
12 36.93 23C/5.5 Upper LoA 0.7634 0.54468 0.88854
13 36.93 33C/5.5 Bias 0.2336 0.07439 0.38684
14 36.93 33C/5.5 Lower LoA -0.1658 -0.32113 0.02001
15 36.93 33C/5.5 Upper LoA 0.6331 0.32082 0.83744
16 36.93 33C/7.5 Bias 0.2368 0.02860 0.40621
17 36.93 33C/7.5 Lower LoA -0.2326 -0.47640 0.07545
18 36.93 33C/7.5 Upper LoA 0.7061 0.45154 0.87547
19 37.29 23C/5.5 Bias 0.2147 -0.13999 0.50590
20 37.29 23C/5.5 Lower LoA -0.2724 -0.67516 0.04306
21 37.29 23C/5.5 Upper LoA 0.7019 0.35388 0.99223
22 37.29 33C/5.5 Bias 0.1721 -0.05788 0.46182
23 37.29 33C/5.5 Lower LoA -0.2273 -0.40434 0.11394
24 37.29 33C/5.5 Upper LoA 0.5715 0.16291 0.88580
25 37.29 33C/7.5 Bias 0.1752 -0.20186 0.40945
26 37.29 33C/7.5 Lower LoA -0.2941 -0.69021 0.02786
27 37.29 33C/7.5 Upper LoA 0.6446 0.22604 0.83207
95% Limits of Agreement with Bootstrap 95% Confidence Intervals
estimate lower.ci upper.ci
Mean Bias 0.2510000 0.1593847 0.3113323
Lower LoA -0.2444893 -0.3529074 -0.1674958
Upper LoA 0.7464893 0.6809332 0.8231947
Coefficient of Variation (%): 19.1
Standard Error of Measurement (SEM): 1.01
Standard Error of the Estimate (SEE): 1.22
Standard Error of Prediction (SEP): 1.9
Intraclass Correlation Coefficients with 95 % C.I.
Model Measures Type ICC Lower CI Upper CI
1 one-way random Agreement ICC1 0.1657 -0.09672 0.6434
2 two-way random Agreement ICC2 0.2898 0.04290 0.6911
3 two-way fixed Consistency ICC3 0.7148 0.41183 0.9258
4 one-way random Avg. Agreement ICC1k 0.4428 -0.54504 0.8783
5 two-way random Avg. Agreement ICC2k 0.6201 0.15204 0.8995
6 two-way fixed Avg. Consistency ICC3k 0.9093 0.73690 0.9804
Coefficient of Variation (%): 18.2
Standard Error of Measurement (SEM): 0.964
Standard Error of the Estimate (SEE): 1.2
Standard Error of Prediction (SEP): 1.8
Intraclass Correlation Coefficients with 95 % C.I.
Model Measures Type ICC Lower CI Upper CI
1 one-way random Agreement ICC1 0.2202 -0.06155 0.6863
2 two-way random Agreement ICC2 0.3327 0.05493 0.7300
3 two-way fixed Consistency ICC3 0.7861 0.52451 0.9470
4 one-way random Avg. Agreement ICC1k 0.5305 -0.30199 0.8974
5 two-way random Avg. Agreement ICC2k 0.6660 0.18865 0.9154
6 two-way fixed Avg. Consistency ICC3k 0.9363 0.81524 0.9862
Coefficient of Variation (%): 18.2 95% C.I. [12.7, 24.4]
Standard Error of Measurement (SEM): 0.964 95% C.I. [0.672, 1.29]
Standard Error of the Estimate (SEE): 1.2 95% C.I. [0.835, 1.6]
Standard Error of Prediction (SEP): 1.8 95% C.I. [1.26, 2.42]
Intraclass Correlation Coefficients
Model Measures Type ICC Lower CI Upper CI
1 one-way random Agreement ICC1 0.2202 -0.06155 0.6863
2 two-way random Agreement ICC2 0.3327 0.05493 0.7300
3 two-way fixed Consistency ICC3 0.7861 0.52451 0.9470
4 one-way random Avg. Agreement ICC1k 0.5305 -0.30199 0.8974
5 two-way random Avg. Agreement ICC2k 0.6660 0.18865 0.9154
6 two-way fixed Avg. Consistency ICC3k 0.9363 0.81524 0.9862
Coefficient of Variation (%): 18.2
Standard Error of Measurement (SEM): 0.964
Standard Error of the Estimate (SEE): 1.2
Standard Error of Prediction (SEP): 1.8
Intraclass Correlation Coefficients with 95 % C.I.
Model Measures Type ICC Lower CI Upper CI
1 one-way random Agreement ICC1 0.2202 -0.06155 0.6863
2 two-way random Agreement ICC2 0.3327 0.05493 0.7300
3 two-way fixed Consistency ICC3 0.7861 0.52451 0.9470
4 one-way random Avg. Agreement ICC1k 0.5305 -0.30199 0.8974
5 two-way random Avg. Agreement ICC2k 0.6660 0.18865 0.9154
6 two-way fixed Avg. Consistency ICC3k 0.9363 0.81524 0.9862
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Bias Bias CI Prediction Interval Tolerance Limits
0.1908 [0.1462, 0.2355] [-0.1578, 0.5395] [-0.2123, 0.594]
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Average of Both Methods Bias Bias CI Prediction Interval
36.38 0.2333 [0.1319, 0.3347] [-0.1275, 0.5941]
36.83 0.1901 [0.1453, 0.2348] [-0.1591, 0.5392]
37.23 0.1512 [0.0552, 0.2472] [-0.2081, 0.5105]
Tolerance Limits
[-0.1844, 0.651]
[-0.2141, 0.5943]
[-0.2648, 0.5672]
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Bias Bias CI Prediction Interval Tolerance Limits
0.1908 [0.1191, 0.2625] [-0.2098, 0.5915] [-0.3803, 0.762]
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Bias Bias CI Prediction Interval Tolerance Limits
0.1907 [0.1284, 0.253] [-0.1828, 0.5642] [-0.2986, 0.68]
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Bias Bias CI Prediction Interval Tolerance Limits
0.1907 [0.1284, 0.253] [-0.1828, 0.5642] [-0.2986, 0.6801]
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Condition Bias Bias CI Prediction Interval Tolerance Limits
AM 0.1581 [0.0786, 0.2377] [-0.2164, 0.5327] [-0.3403, 0.6565]
PM 0.2233 [0.1438, 0.3028] [-0.1513, 0.5979] [-0.2751, 0.7217]
Agreement between Measures (Difference: x-y)
95% Prediction Interval with 95% Tolerance Limits
Condition Bias Bias CI Prediction Interval Tolerance Limits
AM 0.1537 [0.0595, 0.2478] [-0.2919, 0.5993] [-0.3647, 0.7364]
PM 0.2280 [0.1342, 0.3218] [-0.3162, 0.7722] [-0.3617, 0.8177]
Agreement between Measures (Ratio: x/y)
95% Prediction Interval with 95% Tolerance Limits
Average of Both Methods Bias Bias CI Prediction Interval
36.38 1.005 [1.0014, 1.0082] [0.9943, 1.0153]
36.83 1.005 [1.003, 1.0074] [0.9935, 1.0171]
37.23 1.006 [1.0024, 1.0089] [0.9952, 1.0161]
Tolerance Limits
[0.9921, 1.0176]
[0.9877, 1.0231]
[0.9928, 1.0185]
Sympercent Difference between Methods (s%)
95% Prediction Interval with 95% Tolerance Limits
Average of Both Methods Bias Bias CI Prediction Interval
36.38 0.4745 [0.1362, 0.8128] [-0.5679, 1.5169]
36.83 0.5194 [0.3011, 0.7377] [-0.654, 1.6928]
37.23 0.5598 [0.2359, 0.8837] [-0.4811, 1.6007]
Tolerance Limits
[-0.7957, 1.7447]
[-1.2419, 2.2807]
[-0.7182, 1.8378]
Agreement between Measures (Ratio: x/y)
95% Prediction Interval with 95% Tolerance Limits
Condition Average of Both Methods Bias Bias CI Prediction Interval
AM 36.38 1.007 [1.0035, 1.0096] [0.9955, 1.0176]
PM 36.38 1.010 [1.0062, 1.0139] [0.9989, 1.0213]
AM 36.83 1.003 [1.001, 1.0057] [0.992, 1.0149]
PM 36.83 1.007 [1.0047, 1.0091] [0.9927, 1.0213]
AM 37.23 1.001 [0.9967, 1.0045] [0.9895, 1.0117]
PM 37.23 1.004 [1.0015, 1.0066] [0.9929, 1.0153]
Tolerance Limits
[0.9931, 1.0201]
[0.9969, 1.0234]
[0.9882, 1.0188]
[0.9836, 1.0308]
[0.9876, 1.0137]
[0.9897, 1.0186]
Agreement between Measures (Ratio: x/y)
95% Prediction Interval with 95% Tolerance Limits
Condition Average of Both Methods Bias Bias CI Prediction Interval
AM 36.38 1.007 [1.0035, 1.0096] [0.9955, 1.0176]
PM 36.38 1.010 [1.0062, 1.0139] [0.9989, 1.0213]
AM 36.83 1.003 [1.001, 1.0057] [0.992, 1.0149]
PM 36.83 1.007 [1.0047, 1.0091] [0.9927, 1.0213]
AM 37.23 1.001 [0.9967, 1.0045] [0.9895, 1.0117]
PM 37.23 1.004 [1.0015, 1.0066] [0.9929, 1.0153]
Tolerance Limits
[0.9899, 1.022]
[0.9939, 1.0254]
[0.9881, 1.0177]
[0.9904, 1.0239]
[0.985, 1.0159]
[0.9909, 1.0201]
Agreement between Measures (Ratio: x/y)
95% Prediction Interval with 95% Tolerance Limits
Average of Both Methods Bias Bias CI Prediction Interval
36.38 1.005 [1.0014, 1.0082] [0.9943, 1.0153]
36.83 1.005 [1.003, 1.0074] [0.9935, 1.0171]
37.23 1.006 [1.0024, 1.0089] [0.9952, 1.0161]
Tolerance Limits
[0.9901, 1.0215]
[0.9919, 1.0194]
[0.9899, 1.0197]
Limit of Agreement = 95%
###- Shieh Results -###
Exact 90% C.I. [-2.6418, 3.5184]
Hypothesis Test: don't reject h0
###- Bland-Altman Limits of Agreement (LoA) -###
Estimate Lower CI Upper CI CI Level
Bias 0.4383 -0.1669 1.044 0.95
Lower LoA -1.9470 -2.8162 -1.078 0.90
Upper LoA 2.8237 1.9545 3.693 0.90
###- Concordance Correlation Coefficient (CCC) -###
CCC: 0.4791, 95% C.I. [0.1276, 0.7237]
[ FAIL 17 | WARN 135 | SKIP 0 | PASS 117 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-agree_nest.R:38:3'): examples from Zou ───────────────────────
nest_test_new$loa$bias not equal to 0.7234979.
1/1 mismatches
[1] 0.723 - 0.723 == -0.000304
── Failure ('test-agree_nest.R:102:3'): examples from Zou ──────────────────────
nest_test_newlog$loa$df not equal to 3.
1/1 mismatches
[1] 3.61 - 3 == 0.606
── Failure ('test-agree_nest.R:106:3'): examples from Zou ──────────────────────
nest_test_newlog$loa$lower.CL not equal to -0.319.
1/1 mismatches
[1] -0.256 - -0.319 == 0.063
── Failure ('test-agree_nest.R:110:3'): examples from Zou ──────────────────────
nest_test_newlog$loa$lme not equal to 1.030285.
1/1 mismatches
[1] 0.963 - 1.03 == -0.0676
── Failure ('test-agree_nest.R:150:3'): examples from Zou ──────────────────────
c(nest_test_new$loa$bias, nest_test_new$loa$lower_loa, nest_test_new$loa$upper_loa) not equivalent to c(0.7255, -2.14, 3.59).
2/3 mismatches (average diff: 0.152)
[2] -1.99 - -2.14 == 0.151
[3] 3.44 - 3.59 == -0.154
── Failure ('test-agree_nest.R:155:3'): examples from Zou ──────────────────────
c(nest_test_new$loa$lower_loa_ci, nest_test_new$loa$upper_loa_ci) not equivalent to c(-9.8, 11.2).
2/2 mismatches (average diff: 0.626)
[1] -9.15 - -9.8 == 0.649
[2] 10.60 - 11.2 == -0.603
── Failure ('test-loa_mixed.R:28:3'): basic runs ───────────────────────────────
test_bca$loa$estimate not equivalent to `estimates1`.
2/3 mismatches (average diff: 0.0557)
[2] -0.244 - -0.189 == -0.0557
[3] 0.746 - 0.691 == 0.0557
── Failure ('test-loa_mixed.R:31:3'): basic runs ───────────────────────────────
test_bca$var_comp$estimate not equivalent to `estimates2`.
3/3 mismatches (average diff: 0.0305)
[1] 0.155 - 0.168 == -0.0126
[2] 0.200 - 0.149 == 0.0506
[3] 0.253 - 0.224 == 0.0284
── Failure ('test-loa_mixed.R:48:3'): basic runs ───────────────────────────────
test_perc$loa$estimate not equivalent to `estimates1`.
2/3 mismatches (average diff: 0.0557)
[2] -0.244 - -0.189 == -0.0557
[3] 0.746 - 0.691 == 0.0557
── Failure ('test-loa_mixed.R:51:3'): basic runs ───────────────────────────────
test_perc$var_comp$estimate not equivalent to `estimates2`.
3/3 mismatches (average diff: 0.0305)
[1] 0.155 - 0.168 == -0.0126
[2] 0.200 - 0.149 == 0.0506
[3] 0.253 - 0.224 == 0.0284
── Failure ('test-loa_mixed.R:64:3'): basic runs ───────────────────────────────
test_basic$loa$estimate not equivalent to `estimates1`.
2/3 mismatches (average diff: 0.0557)
[2] -0.244 - -0.189 == -0.0557
[3] 0.746 - 0.691 == 0.0557
── Failure ('test-loa_mixed.R:67:3'): basic runs ───────────────────────────────
test_basic$var_comp$estimate not equivalent to `estimates2`.
3/3 mismatches (average diff: 0.0305)
[1] 0.155 - 0.168 == -0.0126
[2] 0.200 - 0.149 == 0.0506
[3] 0.253 - 0.224 == 0.0284
── Failure ('test-loa_mixed.R:80:3'): basic runs ───────────────────────────────
test_norm$loa$estimate not equivalent to `estimates1`.
2/3 mismatches (average diff: 0.0557)
[2] -0.244 - -0.189 == -0.0557
[3] 0.746 - 0.691 == 0.0557
── Failure ('test-loa_mixed.R:83:3'): basic runs ───────────────────────────────
test_norm$var_comp$estimate not equivalent to `estimates2`.
3/3 mismatches (average diff: 0.0305)
[1] 0.155 - 0.168 == -0.0126
[2] 0.200 - 0.149 == 0.0506
[3] 0.253 - 0.224 == 0.0284
── Failure ('test-reli_stats.R:153:3'): Simple Use Run Through ─────────────────
round(test2$icc$icc, 4) not equivalent to round(test2_aov$icc$icc, 4).
6/6 mismatches (average diff: 0.0549)
[1] 0.220 - 0.166 == 0.0545
[2] 0.333 - 0.290 == 0.0429
[3] 0.786 - 0.715 == 0.0713
[4] 0.530 - 0.443 == 0.0877
[5] 0.666 - 0.620 == 0.0459
[6] 0.936 - 0.909 == 0.0270
── Failure ('test-reli_stats.R:194:3'): Simple Use Run Through ─────────────────
round(test3$icc$icc, 4) not equivalent to round(test3_aov$icc$icc, 4).
6/6 mismatches (average diff: 0.0549)
[1] 0.220 - 0.166 == 0.0545
[2] 0.333 - 0.290 == 0.0429
[3] 0.786 - 0.715 == 0.0713
[4] 0.530 - 0.443 == 0.0877
[5] 0.666 - 0.620 == 0.0459
[6] 0.936 - 0.909 == 0.0270
── Failure ('test-reli_stats.R:196:3'): Simple Use Run Through ─────────────────
round(test3$var_comp$percent, 4) not equivalent to round(test3_aov$var_comp$percent, 4).
3/4 mismatches (average diff: 0.0286)
[1] 0.3327 - 0.290 == 0.0429
[2] 0.5768 - 0.595 == -0.0178
[3] 0.0905 - 0.116 == -0.0251
[ FAIL 17 | WARN 135 | SKIP 0 | PASS 117 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc