Package: graphicalMCP 0.2.5

Dong Xi

graphicalMCP: Graphical Multiple Comparison Procedures

Multiple comparison procedures (MCPs) control the familywise error rate in clinical trials. Graphical MCPs include many commonly used procedures as special cases; see Bretz et al. (2011) <doi:10.1002/bimj.201000239>, Lu (2016) <doi:10.1002/sim.6985>, and Xi et al. (2017) <doi:10.1002/bimj.201600233>. This package is a low-dependency implementation of graphical MCPs which allow mixed types of tests. It also includes power simulations and visualization of graphical MCPs.

Authors:Dong Xi [aut, cre], Ethan Brockmann [aut], Gilead Sciences, Inc. [cph, fnd]

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graphicalMCP.pdf |graphicalMCP.html
graphicalMCP/json (API)
NEWS

# Install 'graphicalMCP' in R:
install.packages('graphicalMCP', repos = c('https://gilead-biostats.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/gilead-biostats/graphicalmcp/issues

On CRAN:

27 exports 13 stars 2.23 score 2 dependencies 17 scripts 207 downloads

Last updated 2 months agofrom:ec0ee2c0fe. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKSep 13 2024
R-4.5-winOKSep 13 2024
R-4.5-linuxOKSep 13 2024
R-4.4-winOKSep 13 2024
R-4.4-macOKSep 13 2024
R-4.3-winOKSep 13 2024
R-4.3-macOKSep 13 2024

Exports:adjust_p_bonferroniadjust_p_parametricadjust_p_simesadjust_weights_parametricadjust_weights_simesas_graphMCPas_igraphas_initial_graphbonferronibonferroni_holmfallbackfallback_improved_1fallback_improved_2fixed_sequencegraph_calculate_powergraph_creategraph_generate_weightsgraph_rejection_orderingsgraph_test_closuregraph_test_shortcutgraph_updatehuque_etalrandom_graphsimple_successive_1simple_successive_2three_doses_two_primary_two_secondarytwo_doses_two_primary_two_secondary

Dependencies:matrixStatsmvtnorm

Common multiple comparison procedures illustrated using graphicalMCP

Rendered fromgraph-examples.Rmdusingknitr::rmarkdownon Sep 13 2024.

Last update: 2024-06-10
Started: 2024-01-23

Comparisons with other packages

Rendered fromcomparisons.Rmdusingknitr::rmarkdownon Sep 13 2024.

Last update: 2024-06-04
Started: 2024-01-23

Get started

Rendered fromgraphicalMCP.Rmdusingknitr::rmarkdownon Sep 13 2024.

Last update: 2024-03-04
Started: 2024-01-23

Glossary

Rendered fromglossary.Rmdusingknitr::rmarkdownon Sep 13 2024.

Last update: 2024-02-12
Started: 2024-01-23

Graphical multiple comparison procedures based on the closure principle

Rendered fromclosed-testing.Rmdusingknitr::rmarkdownon Sep 13 2024.

Last update: 2024-06-04
Started: 2024-01-23

Rationales to generate the closure and the weighting strategy of a graph

Rendered fromgenerate-closure.Rmdusingknitr::rmarkdownon Sep 13 2024.

Last update: 2024-06-10
Started: 2024-01-23

Sequentially rejective graphical multiple comparison procedures based on Bonferroni tests

Rendered fromshortcut-testing.Rmdusingknitr::rmarkdownon Sep 13 2024.

Last update: 2024-03-04
Started: 2024-01-23

Readme and manuals

Help Manual

Help pageTopics
Calculate adjusted p-valuesadjust_p_bonferroni adjust_p_parametric adjust_p_simes
Calculate adjusted hypothesis weightsadjust_weights_parametric adjust_weights_simes
Convert between graphicalMCP, gMCP, and igraph graph classesas_graphMCP as_graphMCP.initial_graph as_igraph as_igraph.initial_graph as_initial_graph as_initial_graph.graphMCP as_initial_graph.igraph
Example graphs of commonly used multiple comparison proceduresbonferroni bonferroni_holm fallback fallback_improved_1 fallback_improved_2 fixed_sequence huque_etal random_graph simple_successive_1 simple_successive_2 three_doses_two_primary_two_secondary two_doses_two_primary_two_secondary
Calculate power values for a graphical multiple comparison proceduregraph_calculate_power
Create the initial graph for a multiple comparison proceduregraph_create
Generate the weighting strategy based on a graphical multiple comparison proceduregraph_generate_weights
Find alternate rejection orderings (sequences) for shortcut testsgraph_rejection_orderings
Perform closed graphical multiple comparison proceduresgraph_test_closure
Perform shortcut (sequentially rejective) graphical multiple comparison proceduresgraph_test_shortcut
Obtain an updated graph by updating an initial graphical after deleting hypothesesgraph_update
S3 plot method for class 'initial_graph'plot.initial_graph
S3 plot method for the class 'updated_graph'plot.updated_graph
S3 print method for the class 'graph_report'print.graph_report
S3 print method for the class 'initial_graph'print.initial_graph
S3 print method for the class 'power_report'print.power_report
S3 print method for the class 'updated_graph'print.updated_graph