Add sccomp_test_smooth function for hypothesis testing along smooth t… - #287

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stemangiola wants to merge 35 commits into

Commits on Oct 29, 2025

bump x.y.z version to even y prior to creation of RELEASE_3_22 branch
jwokaty
committed
a805110
bump x.y.z version to odd y following creation of RELEASE_3_22 branch
jwokaty
committed
ea50568

Commits on Apr 28, 2026

bump x.y.z version to even y prior to creation of RELEASE_3_23 branch
jwokaty
committed
e0b24e0
bump x.y.z version to odd y following creation of RELEASE_3_23 branch
jwokaty
committed
6711013

Commits on Jul 23, 2026

Add sccomp_test_smooth function for hypothesis testing along smooth terms
stemangiola
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90cd050

Commits on Aug 5, 2026

Update NEWS to reflect changes in significance colouring defaults for plotting functions. The default now uses pH0 instead of FDR, with guidance on retaining FDR-based colouring. Adjusted messaging…
stemangiola
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7ebe11e

Commits on Aug 7, 2026

version up to Bioc
stemangiola
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9925730
Initial plan
Copilot
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27adc38
Support character factor-smooth grouping

Copilot
and
stemangiola
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7e9f951
Clean smooth grouping test formatting

Copilot
and
stemangiola
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3151b7f
Handle factor smooth grouping terms robustly

Copilot
and
stemangiola
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5582272
Avoid unnecessary smooth data copies

Copilot
and
stemangiola
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f9d5a01
Preserve smooth data frame input handling

Copilot
and
stemangiola
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4664155
Add sccomp_test_smooth function for hypothesis testing along smooth terms
stemangiola
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77ace24
Merge branch 'splines' of https://github.com/MangiolaLaboratory/sccomp into splines
stemangiola
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e57558c
Increase random-effect slot budget from 4 to 5, allowing for coexistence of multiple smooth terms with explicit random effects. Adjusted relevant functions and documentation accordingly.
stemangiola
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e1b4b05
Update random-effect initialization to accommodate 5 slots, enhancing support for multiple smooth terms with explicit random effects. Adjusted related code accordingly.
stemangiola
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0e1a450
update comment
stemangiola
committed
2be536d

Commits on Aug 11, 2026

Enhance continuous covariate scaling in design matrix functions. Introduced a new `scale_numeric_covariates` function to ensure z-scoring is based on fitted samples, preventing prediction shifts du…
stemangiola
committed
0a29093

Commits on Aug 12, 2026

Initial plan
Copilot
authored
f244ff6
Add NA validation coverage

Copilot
and
stemangiola
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142f797
Prefix NA validation errors

Copilot
and
stemangiola
authored
b4607e7
Merge pull request #295 from MangiolaLaboratory/copilot/add-unit-test-for-nas
stemangiola
authored
ade68a5

Commits on Aug 19, 2026

Commits on Sep 8, 2026

increase RE slots to 6 to fit more complex models with smooths
stemangiola
committed
03c40fa