Statistical Analysis of Contingency Tables
![[R logo]](../../../doc/html/Rlogo.svg)
![[Up]](../../../doc/html/left.jpg)
![[Top]](../../../doc/html/up.jpg)
Documentation for package ‘contingencytables’ version 3.0.1
Help Pages
A B C D E F G H I J K L M N P Q R S T U V W Z misc
| contingencytables-package | Statistical Analysis of Contingency tables |
-- A --
| Adjusted_inv_sinh_CI_OR_2x2 | The adjusted inverse hyperbolic sine confidence interval for the odds ratio |
| Adjusted_inv_sinh_CI_ratio_2x2 | The adjusted inverse hyperbolic sine confidence interval for the ratio of probabilities |
| Adjusted_log_CI_2x2 | The adjusted log confidence interval for the ratio of probabilities |
| AgrestiCaffo_CI_2x2 | The Agresti-Caffo confidence interval for the difference between probabilities |
| AgrestiCoull_CI_1x2 | The Agresti-Coull confidence interval for the binomial probability |
| Arcsine_CI_1x2 | Arcsine confidence interval |
-- B --
| BaptistaPike_exact_conditional_CI_2x2 | The Baptista-Pike exact conditional confidence interval for the odds ratio |
| BaptistaPike_midP_CI_2x2 | The Baptista-Pike mid-P confidence interval for the odds ratio |
| bentur_2009 | Airway hyper-responsiveness before and after stem cell transplantation |
| Bhapkar_test_paired_cxc | The Bhapkar test for marginal homogeneity |
| Blaker_exact_CI_1x2 | The Blaker exact confidence interval |
| Blaker_exact_test_1x2 | The Blaker exact test |
| Blaker_midP_CI_1x2 | The Blaker mid-P confidence interval for the binomial probability |
| Blaker_midP_test_1x2 | The Blaker mid-P test |
| bofin_2004 | Breast Tumor |
| BonettPrice_hybrid_Wilson_score_CI_CC_paired_2x2 | The Bonett-Price hybrid Wilson score confidence interval for the ratio of paired probabilities |
| BonettPrice_hybrid_Wilson_score_CI_paired_2x2 | The Bonett-Price hybrid Wilson score confidence interval for the ratio of paired probabilities |
| Bonferroni_type_CIs_paired_cxc | Bonferroni-type confidence intervals for differences of marginal probabilities |
| Bonferroni_type_CIs_rxc | The Bonferroni-type simultaneous confidence intervals for the differences pi_1|i - pi_1|j |
| Brant_test_2xc | The Brant test for the proportional odds assumption |
| breidablik_2008 | Self-rated health (Table 7.9) |
| BreslowDay_homogeneity_test_stratified_2x2 | The Breslow-Day test of homogeneity of odds ratios over strata |
-- C --
| calculate_limit_lower | Calculate the lower limit of a confidence interval |
| calculate_limit_upper | Calculate the upper limit of a confidence interval |
| calc_prob | Calculate probability |
| calc_Pvalue_4x2 | Calculate probability |
| calc_Pvalue_5x2 | Calculate probability |
| cavo_2012 | Complete response before and after consolidation therapy |
| Chacko_test_1xc | The Chacko test for order-restriction |
| chap1 | Chapter 1: Introduction |
| chap10 | Chapter 10: Stratified 2x2 Tables and Meta-Analysis |
| chap2 | Chapter 2: The 1x2 Table and the Binomial Distribution |
| chap3 | Chapter 3: The 1xc Table and the Multinomial Distribution |
| chap4 | Chapter 4: The 2x2 Table |
| chap5 | Chapter 5: The Ordered rx2 Table |
| chap6 | Chapter 6: The Ordered 2xc Table |
| chap7 | Chapter 7: The rxc Table |
| chap8 | Chapter 8: The Paired 2x2 Table |
| chap9 | Chapter 9: The Paired cxc Table |
| ClopperPearson_exact_CI_1x2 | The Clopper-Pearson exact confidence interval |
| ClopperPearson_exact_CI_1x2_beta_version | The Clopper-Pearson exact confidence interval for the binomial probability (beta version) |
| ClopperPearson_midP_CI_1x2 | The Clopper-Pearson mid-P confidence interval |
| CochranArmitage_CI_rx2 | The Cochran-Armitage confidence interval for trend in the linear model |
| CochranArmitage_exact_cond_midP_tests_rx2 | The Cochran-Armitage exact conditional and mid-P tests |
| CochranArmitage_MH_tests_rx2 | The Cochran-Armitage, modified Cochran-Armitage, and Mantel-Haenszel tests for trend |
| CochranMantelHaenszel_test_stratified_2x2 | The Cochran-Mantel-Haenszel test of a common odds ratio |
| Cochran_Q_test_stratified_2x2 | The Cochran Q test of homogeneity of effects over strata |
| contingencytables | Statistical Analysis of Contingency tables |
| contingencytables_result | contingencytables_result class |
| Cornfield_exact_conditional_CI_2x2 | The Cornfield exact conditional confidence interval for the odds ratio |
| Cornfield_midP_CI_2x2 | The Cornfield mid-P confidence interval for the odds ratio |
| Cumulative_models_for_2xc | Cumulative logit and probit models |
| Cumulative_models_for_rxc | Cumulative logit and probit models |
-- D --
| doll_hill_1950 | Smoking and lung cancer |
-- E --
| Exact_binomial_test_1x2 | The exact binomial test for the binomial probability (pi) |
| Exact_cond_midP_linear_rank_tests_2xc | Exact conditional and mid-P linear rank tests |
| Exact_cond_midP_tests_rxc | Exact conditional and mid-P tests for the rxc table |
| Exact_cond_midP_unspecific_ordering_rx2 | The exact conditional and mid-P tests for unspecific ordering |
| Exact_multinomial_test_1xc | The exact multinomial test for multinomial probabilities |
| Exact_unconditional_test_2x2 | Exact unconditional test for association in 2x2 tables |
| ezra_2010 | Floppy eyelid syndrome vs obstructive sleep apnea |
-- F --
| fischer_1999 | A comparison between serial and retrospective measurements |
| FisherFreemanHalton_asymptotic_test_rxc | The Fisher-Freeman-Halton asymptotic test for unordered rxc tables |
| Fisher_exact_test_2x2 | The Fisher exact test for association in 2x2 tables |
| Fisher_midP_test_2x2 | The Fisher mid-P test for association in 2x2 tables |
| FleissEveritt_test_paired_cxc | The Fleiss-Everitt version of the Stuart test for marginal homogeneity |
| FleissLevinPaik_test_paired_cxc | The Fleiss-Levin-Paik test for three-level ordinal outcomes |
| fleiss_2003 | Table 13.6, page 382, of Fleiss et al. (2003) |
| fontanella_2008 | The Adolescent Placement Study |
-- G --
| gamma_coefficient_rxc | The gamma coefficient |
| gamma_coefficient_rxc_bca | The gamma coefficient with the bias-corrected and accelerated boostrap confidence interval |
| Gart_adjusted_logit_CI_2x2 | The Gart adjusted logit confidence interval for the odds ratio |
| Gold_Wald_CIs_1xc | The Gold Wald simultaneous intervals for the multinomial probabilities |
| Goodman_Wald_CIs_1xc | The Goodman Wald simultaneous intervals for the multinomial probabilities |
| Goodman_Wald_CIs_for_diffs_1xc | The Goodman Wald simultaneous intervals for the differences between the |
| Goodman_Wilson_score_CIs_1xc | The Goodman Wilson score simultaneous intervals for the multinomial probabilities |
-- H --
| hine_1989 | Prophylactice use of Lidocaine in myocardial infarction |
| hypothetical | Hypothetical experiment |
-- I --
| Independence_smoothed_logit_CI_2x2 | The Independence-smoothed logit confidence interval for the odds ratio |
| indredavik_2008 | Elevated troponin T levels in stroke patients |
| InverseVariance_estimate_stratified_2x2 | The inverse variance estimate of the overall effect across strata |
| Inv_sinh_CI_OR_2x2 | The inverse hyperbolic sine confidence interval for the odds ratio |
| Inv_sinh_CI_ratio_2x2 | The inverse hyperbolic sine confidence interval for the ratio of probabilities |
-- J --
| Jeffreys_CI_1x2 | Jeffreys confidence interval for the binomial probability |
| JonckheereTerpstra_test_rxc | The Jonckheere-Terpstra test for association |
| jullumstroe_2009 | Colorectal cancer (Table 7.7) |
-- K --
| Katz_log_CI_2x2 | The Katz log confidence interval for the ratio of probabilities |
| Kendalls_tau_b_rxc | Kendall's tau-b with confidence interval based on the Fieller standard deviation |
| Kendalls_tau_b_rxc_bca | Kendall's tau-b with the bias-corrected and accelerated boostrap confidence interval |
| Koopman_asymptotic_score_CI_2x2 | The Koopman asymptotic score confidence interval for the ratio of probabilities |
| KruskalWallis_asymptotic_test_rxc | The Kruskal-Wallis asymptotic test for singly ordered rxc tables |
-- L --
| lampasona_2013 | A case-control study of GADA exposure on IPEX syndrome |
| ligarden_2010 | Ligarden et al., 2010 |
| linear_by_linear_test_rxc | The linear-by-linear test for association |
| list_functions | List functions from a chapter |
| LR_CI_1x2 | The likelihood ratio confidence interval for the binomial probability |
| LR_test_1x2 | The likelihood ratio test for the binomial probability (pi) |
| LR_test_1xc | The likelihood ratio test for multinomial probabilities |
| LR_test_2x2 | The likelihood ratio test for association in 2x2 tables |
| lund_2012 | Low Birth Weight vs psychiatric morbitidy with control as reference category |
| lydersen_2012a | Postoperative nausea |
-- M --
| mangerud_2014_BMI | Psychiatric diag. vs BMI with hyperkinetic disorders as reference category |
| mangerud_2014_PA | Psychiatric Diagnoses and Physical Activity |
| MantelHaenszel_estimate_stratified_2x2 | The Mantel-Haenszel estimate of the overall effect across strata |
| MantelHaenszel_test_2xc | The Mantel-Haenszel test of association with column scores |
| McNemarBowker_test_paired_cxc | The McNemar-Bowker test for marginal symmetry |
| McNemar_asymptotic_test_CC_paired_2x2 | The McNemar asymptotic test with continuity correction |
| McNemar_asymptotic_test_paired_2x2 | The McNemar asymptotic test |
| McNemar_exact_cond_test_paired_2x2 | The McNemar exact conditional test |
| McNemar_exact_unconditional_test_paired_2x2 | The McNemar exact unconditional test |
| McNemar_midP_test_paired_2x2 | The McNemar mid-P test |
| Mee_asymptotic_score_CI_2x2 | The Mee asymptotic score confidence interval for the difference between probabilities |
| MidP_binomial_test_1x2 | The mid-P binomial test for the binomial probability (pi) |
| MidP_multinomial_test_1xc | The mid-P multinomial test for multinomial probabilities |
| MiettinenNurminen_asymptotic_score_CI_difference_2x2 | The Miettinen-Nurminen asymptotic score confidence interval for the |
| MiettinenNurminen_asymptotic_score_CI_OR_2x2 | The Miettinen-Nurminen asymptotic score CI for the odds ratio |
| MiettinenNurminen_asymptotic_score_CI_ratio_2x2 | The Miettinen-Nurminen asymptotic score confidence interval for the ratio of probabilities |
| mills_graubard_1987 | Alcohol consumption and malformations |
| ML_estimates | Calculate ML estimates |
| ML_estimates_and_CIs_stratified_2x2 | Maximum likelihood estimates with CIs of the grouping and strata effects |
| MOVER_R_Wilson_CI_OR_2x2 | The MOVER-R Wilson confidence interval for the odds ratio |
| MOVER_R_Wilson_CI_ratio_2x2 | The MOVER-R Wilson confidence interval for the ratio of probabilities |
| MOVER_Wilson_score_CI_paired_2x2 | The MOVER Wilson score confidence interval for the ratio of paired probabilities |
-- N --
| Newcombe_hybrid_score_CI_2x2 | The Newcombe hybrid score confidence interval for the difference between probabilities |
| Newcombe_square_and_add_CI_paired_2x2 | The Newcombe square-and-add confidence interval for the difference |
-- P --
| Pearson_chi_squared_test_1xc | The Pearson chi-squared test for multinomial probabilities |
| Pearson_chi_squared_test_2x2 | The Pearson chi-squared test for association in 2x2 tables |
| Pearson_chi_squared_test_CC_2x2 | The Pearson chi-squared test for association in 2x2 tables |
| Pearson_correlation_coefficient_rxc | The Pearson correlation coefficient |
| Pearson_correlation_coefficient_rxc_bca | The Pearson correlation coefficient with the bias-corrected and accelerated |
| Pearson_LR_homogeneity_test_stratified_2x2 | The Pearson chi-squared and likelihood ratio tests for homogeneity over strata |
| Pearson_LR_tests_cum_OR_2xc | The Pearson chi-squared and likelihood ratio tests for cumulative ORs in 2xc tables |
| Pearson_LR_tests_rxc | The Pearson chi-squared and likelihood ratio tests for association in rxc tables |
| Pearson_LR_tests_unspecific_ordering_rx2 | The Pearson chi-squared and likelihood ratio tests for unspecific ordering in rx2 tables |
| Pearson_LR_test_common_effect_stratified_2x2 | The Pearson chi-squared and likelihood ratio tests of a common difference |
| Pearson_residuals_rxc | The Pearson residuals and the standardized Pearson residuals |
| perondi_2004 | An RCT of high vs standard dose of epinephrine |
| peterson_2007 | Pretherapy susceptability of pathogens |
| Peto_homogeneity_test_stratified_2x2 | The Peto test for homogeneity of odds ratios over strata |
| Peto_OR_estimate_stratified_2x2 | The Peto estimate of the common odds ratio across strata |
| PriceBonett_approximate_Bayes_CI_2x2 | The Price-Bonett approximate Bayes confidence interval for the ratio of probabilities |
| print.contingencytables_result | Output from a contingency tables method |
-- Q --
| QuesenberryHurst_Wilson_score_CIs_1xc | The Quesenberry-Hurst Wilson score simultaneous intervals for the multinomial probabilities |
-- R --
| RBG_test_and_CI_stratified_2x2 | The RBG test and CI for a common odds ratio |
| ritland_2007 | The association between CHRNA4 genotype and XFS |
-- S --
| Scheffe_type_CIs_paired_cxc | Scheffe-type confidence intervals for differences of marginal probabilities |
| Scheffe_type_CIs_rxc | The Scheffe-type simultaneous confidence intervals for the differences pi_1|i - pi_1|j |
| Score_test_1x2 | The score test for the binomial probability (pi) |
| Score_test_and_CI_marginal_mean_scores_paired_cxc | Score test and CI marginal mean scores paired CxC |
| Score_test_CC_1x2 | The score test with continuity correction for the |
| Score_test_for_effect_in_the_probit_model_2xc | Score test for effect in the cumulative probit model |
| score_test_statistic | Calculate ML estimates |
| singh_2010 | The number of n-th order male births |
| singh_2010_1 | The number of n-th order male births |
| snp6498169 | Genotype counts for SNP rs 6498169 in RA patients |
| Spearman_correlation_coefficient_rxc | The Spearman correlation coefficient |
| Spearman_correlation_coefficient_rxc_bca | The Spearman correlation coefficient with the bias-corrected and accelerated |
| stratified_2x2_tables | Stratified 2x2 tables |
| Stuart_test_paired_cxc | The Stuart test for marginal homogeneity |
-- T --
| table_7.3 | Treatment for ear infection |
| table_7.4 | Psychiatric Diagnoses and Physical Activity |
| table_7.5 | Psychiatric diag. vs BMI with hyperkinetic disorders as reference category |
| table_7.6 | Low Birth Weight vs psychiatric morbitidy with control as reference category |
| table_7.7 | Colorectal cancer (Table 7.7) |
| table_7.8 | Breast Tumor |
| table_7.9 | Self-rated health (Table 7.9) |
| Tango_asymptotic_score_CI_paired_2x2 | The Tango asymptotic score confidence interval for the difference between paired probabilities |
| Tang_asymptotic_score_CI_paired_2x2 | The Tang asymptotic score confidence interval for the ratio of paired probabilities |
| tea | A lady tasting a cup of tea |
| the_1x2_table_CIs | The 1x2 Table CIs |
| the_1x2_table_tests | The 1x2 Table tests |
| the_1xc_table_CIs | The 1xc table CIs |
| the_1xc_table_tests | The 1xc table tests |
| the_2x2_table_CIs_difference | The 2x2 table CIs difference |
| the_2x2_table_CIs_OR | The 2x2 table CIs odds ratio |
| the_2x2_table_CIs_ratio | The 2x2 table CIs ratio |
| the_2x2_table_tests | The 2x2 table tests |
| the_2xc_table | The 2xc table |
| the_paired_2x2_table_CIs_difference | The Paired 2x2 table CIs difference |
| the_paired_2x2_table_CIs_OR | The Paired 2x2 table CIs OR |
| the_paired_2x2_table_CIs_ratio | The Paired 2x2 table CIs ratio |
| the_paired_2x2_table_tests | The Paired 2x2 table tests |
| the_paired_cxc_table_nominal | The Paired CxC table - nominal |
| the_paired_cxc_table_ordinal | The Paired CxC table - ordinal |
| the_rx2_table | The rx2 table |
| the_rxc_table | The rxc table |
| Transformed_Blaker_exact_CI_paired_2x2 | The Transformed Blaker exact confidence interval for the conditional odds ratio |
| Transformed_Clopper_Pearson_exact_CI_paired_2x2 | The Transformed Clopper-Pearson exact confidence interval for the conditional odds ratio |
| Transformed_Clopper_Pearson_midP_CI_paired_2x2 | The Transformed Clopper-Pearson mid-P confidence interval for the conditional odds ratio |
| Transformed_Wilson_score_CI_paired_2x2 | The Transformed Wilson score confidence interval for the conditional odds ratio |
| Trend_estimate_CI_tests_rx2 | Trend estimate for linear and logit models |
-- U --
| Uncorrected_asymptotic_score_CI_2x2 | The uncorrected asymptotic score confidence interval for the odds ratio |
-- V --
| validateArguments | Validate arguments of a function |
| vanbalen_2003 | Treatment for ear infection |
-- W --
| Wald_CI_1x2 | The Wald confidence interval for the binomial probability |
| Wald_CI_2x2 | The Wald confidence interval for the difference between probabilities |
| Wald_CI_AgrestiMin_paired_2x2 | The Wald confidence interval for the difference between paired probabilities |
| Wald_CI_BonettPrice_paired_2x2 | The Wald confidence interval for the difference between paired probabilities |
| Wald_CI_CC_1x2 | The Wald CI with CC for the binomial probability |
| Wald_CI_CC_2x2 | The Wald confidence interval for the difference between probabilities |
| Wald_CI_diff_CC_paired_2x2 | The Wald confidence interval for the difference between paired probabilities |
| Wald_CI_diff_paired_2x2 | The Wald confidence interval for the difference between paired probabilities |
| Wald_CI_OR_Laplace_paired_2x2 | The Wald confidence interval for the conditional odds ratio with Laplace adjustment |
| Wald_CI_OR_paired_2x2 | The Wald confidence interval for the conditional odds ratio |
| Wald_CI_ratio_paired_2x2 | The Wald confidence interval for the ratio of paired probabilities |
| Wald_test_1x2 | The Wald test for the binomial probability (pi) |
| Wald_test_and_CI_common_diff_stratified_2x2 | The Wald test and CI for a common difference between probabilities |
| Wald_test_and_CI_common_ratio_stratified_2x2 | The Wald test and CI for a common ratio of probabilities |
| Wald_test_and_CI_marginal_mean_ranks_paired_cxc | The Wald test and confidence interval for the difference between marginal mean ranks / ridits |
| Wald_test_and_CI_marginal_mean_scores_paired_cxc | The Wald test and confidence interval for the difference between marginal mean scores |
| Wald_test_CC_1x2 | The Wald test with continuity correction for the binomial probability |
| Wilson_score_CI_1x2 | The Wilson score confidence interval |
| Wilson_score_CI_CC_1x2 | The Wilson score confidence interval with continuity correction for the binomial probability |
| Woolf_logit_CI_2x2 | The Woolf logit confidence interval for the odds ratio |
| Woolf_test_and_CI_stratified_2x2 | The Woolf test and CI for a common odds ratio |
-- Z --
| Z_unpooled_test_2x2 | The Z-unpooled test for association in 2x2 tables |
-- misc --
| .onAttach | Prints welcome message on package load |