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* Generalise interpretive rules for multi-guideline support (#268) - Rename data-raw/eucast_rules.tsv → interpretive_rules.tsv; add rule.provider column (value: "EUCAST") to distinguish future CLSI rows - Rename EUCAST_RULES_DF → INTERPRETIVE_RULES_DF in _pre_commit_checks.R; filter by rule.provider == guideline when applying rules in interpretive_rules() - Rename custom_eucast_rules() → custom_interpretive_rules() with new S3 class "custom_interpretive_rules"; old function becomes a deprecated wrapper in zz_deprecated.R; backward-compat S3 dispatch shims added for old class - Remove stop_if(guideline == "CLSI", ...) so clsi_rules() no longer errors - Add .onLoad shim in zzz.R to create INTERPRETIVE_RULES_DF from EUCAST_RULES_DF for transitional compatibility until sysdata.rda is regenerated https://claude.ai/code/session_01D46BTsfJSPo3HnLWp3PRkP * Fix namespace load failure: remove assignInNamespace from .onLoad (#268) assignInNamespace cannot add NEW bindings to a locked package namespace (R locks namespace bindings before .onLoad runs). Replace the .onLoad shim with a runtime fallback inside interpretive_rules(): if INTERPRETIVE_RULES_DF is absent (pre-regeneration sysdata.rda), derive it from EUCAST_RULES_DF by adding the rule.provider column. This also fixes the screening_abx line to reuse the already-resolved interpretive_rules_df_total instead of a bare INTERPRETIVE_RULES_DF reference. https://claude.ai/code/session_01D46BTsfJSPo3HnLWp3PRkP * fixes * fixes --------- Co-authored-by: Claude <noreply@anthropic.com>
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@@ -45,8 +45,9 @@ A list with class \code{"htest"} containing the following
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\item{residuals}{the Pearson residuals,
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\code{(observed - expected) / sqrt(expected)}.}
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\item{stdres}{standardized residuals,
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\code{(observed - expected) / sqrt(V)}, where \code{V} is the residual cell variance (Agresti, 2007,
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section 2.4.5 for the case where \code{x} is a matrix, \code{n * p * (1 - p)} otherwise).}
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\code{(observed - expected) / sqrt(V)}, where \code{V} is the
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residual cell variance (Agresti, 2007, section 2.4.5
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for the case where \code{x} is a matrix, \code{n * p * (1 - p)} otherwise).}
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}
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\description{
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\code{\link[=g.test]{g.test()}} performs chi-squared contingency table tests and goodness-of-fit tests, just like \code{\link[=chisq.test]{chisq.test()}} but is more reliable (1). A \emph{G}-test can be used to see whether the number of observations in each category fits a theoretical expectation (called a \strong{\emph{G}-test of goodness-of-fit}), or to see whether the proportions of one variable are different for different values of the other variable (called a \strong{\emph{G}-test of independence}).
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