Weave an AnansiWeb object
Value
an AnansiWeb object, with sparse binary biadjacency matrix
with features from y as rows and features from x as columns in
dictionary slot.
Examples
# Setup demo tables
ec2ko <- kegg_link()[["ec2ko"]]
ec2cpd <- kegg_link()[["ec2cpd"]]
# Basic usage
weaveWeb(cpd ~ ko, link = kegg_link())
#> Warning: Argument `metadata` not provided; Please validate sample ID order.
#> anansi::AnansiWeb S7_object with 1 observations:
#> tableY: cpd (6754 features)
#> tableX: ko (7270 features)
#> Use @ to access: tableX, tableY, dictionary, metadata.
weaveWeb(x = "ko", y = "ec", link = ec2ko)
#> Warning: Argument `metadata` not provided; Please validate sample ID order.
#> anansi::AnansiWeb S7_object with 1 observations:
#> tableY: ec (5581 features)
#> tableX: ko (8817 features)
#> Use @ to access: tableX, tableY, dictionary, metadata.
weaveWeb(ec ~ cpd, link = ec2cpd)
#> Warning: Argument `metadata` not provided; Please validate sample ID order.
#> anansi::AnansiWeb S7_object with 1 observations:
#> tableY: ec (5934 features)
#> tableX: cpd (7802 features)
#> Use @ to access: tableX, tableY, dictionary, metadata.
# A wrapper is available for kegg ko, ec and cpd data
generic <- weaveWeb(cpd ~ ko, link = kegg_link())
#> Warning: Argument `metadata` not provided; Please validate sample ID order.
kegg_wrapper <- weaveKEGG(cpd ~ ko)
#> Warning: Argument `metadata` not provided; Please validate sample ID order.
identical(generic, kegg_wrapper)
#> [1] TRUE
# The following are equivalent to transposition:
a <- weaveWeb(ko ~ cpd, link = kegg_link()) |> dictionary()
#> Warning: Argument `metadata` not provided; Please validate sample ID order.
b <- weaveWeb(cpd ~ ko, link = kegg_link()) |> dictionary()
#> Warning: Argument `metadata` not provided; Please validate sample ID order.
identical(a, Matrix::t(b))
#> [1] TRUE