samsam2610/experiments-database
1
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases Wiki Activity

feat(matlab): add Satterthwaite DF + honest random-slope test to LME reports

Browse Source 
Every fitlme-based report (lme_*, paper_*, phase_*, and the variations'
analyze.m) now shows, per effect: residual-DF p, Satterthwaite-DF p, and --
for the interaction -- an HONEST test from a per-animal random-SLOPE model
(day|rat), whose Satterthwaite DF collapses toward the animal count.

New: tdcs_random_slope_interaction.m (shared helper). Wired into tdcs_lme,
tdcs_paper_lme, tdcs_phase_lme, variation_analyze; SUMMARY.csv gains
interaction_p_satt / interaction_p_rs. Regenerated all results/, variations/,
matched-effort outputs.

Key point this surfaces: Satterthwaite ~= residual on the random-INTERCEPT
model (the slope's error is at session level), so it does NOT fix
pseudoreplication; the random-slope model does. Effect: full-range mergeA2
interaction 0.009 -> 0.75 (collapses); unmerge_d0_5 0.015 -> 0.13 (n.s.);
the pooled-control early windows survive honestly (naive_a2_d0_5 0.001 ->
0.028; naive_boxa_d0_5 0.003 -> 0.036). Suite 42/42.

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
This commit is contained in:
Experiments DB Dev
2026-07-22 15:45:19 -04:00
parent 5fcd97f81a
commit 8a18c894dd
77 changed files with 2066 additions and 345 deletions
Download Patch File Download Diff File Expand all files Collapse all files
analysis/matlab/tests/tLme.m
+21
View File
@@ -123,6 +123,27 @@ classdef tLme < matlab.unittest.TestCase
testCase.verifyFalse(any(sg.group == 'Naive'));
end
function testLmeReportsHaveSatterthwaiteAndHonest(testCase)
% Every fitlme report adds Satterthwaite DF and the honest
% random-slope interaction test.
cfg = tdcs_config();
L = tdcs_lme(tdcs_scenario_data('mergeA2_full'), cfg);
testCase.verifyTrue(isfield(L.interaction, 'pSatt'));
testCase.verifyTrue(isfield(L.interaction, 'dfSatt'));
testCase.verifyTrue(isfield(L, 'interRS') && islogical(L.interRS.ok));
% The full-range mergeA2 interaction is significant under obs-level
% DF but NOT under the honest per-animal random slope (it collapses).
testCase.verifyLessThan(L.interaction.p, 0.05);
testCase.verifyTrue(L.interRS.ok);
testCase.verifyGreaterThan(L.interRS.p, 0.05);
% Report text carries the Satterthwaite column and honest block.
here = fileparts(fileparts(mfilename('fullpath')));
evalc("tdcs_glm('lme_mergeA2_full')");
txt = fileread(fullfile(here, 'results', 'lme_mergeA2_full.txt'));
testCase.verifyTrue(contains(txt, 'Satterthwaite'));
testCase.verifyTrue(contains(txt, 'HONEST LME'));
end
function testPaperFormulaReplicatesInteraction(testCase)
% The paper's exact formula (behavior ~ stim + day + stim:day +
% (1|rat)) on mergeA2 reproduces the paper's interaction