# Annotation-Based Analysis of Specific Interactions

## Documentation for package ‘anansi’ version 1.3.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

anansi-coercion | Coercion functions for anansi
AnansiTale | AnansiTale S7 container class. Not intended for general use.
AnansiTale-class | AnansiTale S7 container class. Not intended for general use.
AnansiWeb | AnansiWeb S7 container class
AnansiWeb-methods | Methods for AnansiWeb S7 container class
AnansiWeb-pairwise | Methods for pairwise operations on AnansiWeb objects
as.data.frame.anansi::AnansiWeb | Coercion functions for anansi
as.list.anansi::AnansiWeb | Coercion functions for anansi
as.list.anansi::MultiFactor | Coercion functions for anansi
as.MAE | Coercion functions for anansi
as.MultiAssayExperiment | Coercion functions for anansi
as.TreeSummarizedExperiment | Coercion functions for anansi
as.TSE | Coercion functions for anansi
asMAE | Coercion functions for anansi
asMultiAssayExperiment | Coercion functions for anansi
asMultiFactor | MultiFactor S7 container class
asTreeSummarizedExperiment | Coercion functions for anansi
asTSE | Coercion functions for anansi
dictionary | Get dictionary
dictionary-generic | Get dictionary
dim.anansi::AnansiWeb | Methods for AnansiWeb S7 container class
dimnames.anansi::AnansiWeb | Methods for AnansiWeb S7 container class
ec2cpd | Use linking data from the KEGG database.
ec2ko | Use linking data from the KEGG database.
FMT_KOs | Snippet of the CLR-transformed inferred functional data from the FMT Aging study.
FMT_metab | Snippet of the CLR-transformed hippocampal metabolomics data from the FMT Aging study.
FMT_metadata | Snippet of the metadata from the FMT Aging study.
getEdgeList | Get a listof edges
getFeaturePairs | Get a list of all pairs of features
getGraph | Get a graph object.
getGraph.anansi::MultiFactor | Methods for MultiFactor S7 container class
getGraph.list | Get a graph object.
kegg_link | Use linking data from the KEGG database.
krebs | Simplified snippet of the Krebs cycle
krebsDemoWeb | Generate a random AnansiWeb or MultiFactor
levels.anansi::MultiFactor | Methods for MultiFactor S7 container class
linkBiobakeryMap | make a link data.frame for biobakery mapping files input
metadata | Get metadata.
metadata-method | Get metadata.
metadata.set | Set metadata.
metadata<- | Set metadata.
metadata<--method | Set metadata.
MultiFactor | MultiFactor S7 container class
MultiFactor-methods | Methods for MultiFactor S7 container class
names.anansi::AnansiWeb | Methods for AnansiWeb S7 container class
pairs.anansi::AnansiWeb | Methods for pairwise operations on AnansiWeb objects
pairs.AnansiWeb | Methods for pairwise operations on AnansiWeb objects
pairwiseApply | Apply a function on each pair of features
pairwiseApply-generic | Apply a function on each pair of features
pairwiseApply.anansi::AnansiWeb | Methods for pairwise operations on AnansiWeb objects
pairwiseApply.AnansiWeb | Methods for pairwise operations on AnansiWeb objects
plotAnansi | Dissociation plot
plotAnansi-generic | Dissociation plot
plotAnansi-methods | Dissociation plot
randomAnansi | Generate a random AnansiWeb or MultiFactor
randomMultiFactor | Generate a random AnansiWeb or MultiFactor
randomWeb | Generate a random AnansiWeb or MultiFactor
show.anansi::AnansiWeb | Methods for AnansiWeb S7 container class
tableX | Get tableX
tableX-generic | Get tableX
tableY | Get tableY
tableY-generic | Get tableY
unfactor | Methods for MultiFactor S7 container class
unfactor-method | Methods for MultiFactor S7 container class
weaveKEGG | Weave an AnansiWeb object
weaveWeb | Weave an AnansiWeb object
weaveWeb-methods | Weave an AnansiWeb
weaveWeb.character | Weave an AnansiWeb
weaveWeb.formula | Weave an AnansiWeb
weaveWeb.MultiAssayExperiment | Weave an AnansiWeb
weaveWeb.SingleCellExperiment | Weave an AnansiWeb
weaveWeb.TreeSumarizedExperiment | Weave an AnansiWeb