GetLayout: Get 'Benchmark' 2-dimensional layout of input data

In davnovak/SingleBench: Framework for benchmarking and optimising dimension-reduction and clustering pipelines in expression data analysis

Description

Extracts coordinate matrix of a 2-dimensional layout associated with the input data for a Benchmark object (benchmark pipeline set-up). This layout can be created by applying AddLayout to a previously evaluated benchmark pipeline and serves visualisation purposes.

Usage

GetLayout(benchmark, concatenate = FALSE)

Arguments

benchmark	object of type Benchmark
concatenate	logical value; if a list of layout matrices (per sample) is available, should it be concatenated into one vector? Default value is FALSE

See Also

• Benchmark: constructs a Benchmark object (benchmark pipeline set-up)\

• Evaluate: runs all benchmark sub-pipelines and scores the performance of each tool

• AddLayout: allows you to add a separate 2-dimensional layout of the input dataset or to use an existing projection (produced in the evaluation) as a visualisation layout.

davnovak/SingleBench documentation built on Dec. 19, 2021, 9:10 p.m.