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Replicate deconvolution subgroups in a new dataset

Source: R/cell_deconvolution.R
replicate_deconvolution_subgroups.Rd

Reconstructs and applies deconvolution subgroup signatures based on a previous decomposition.

Usage

replicate_deconvolution_subgroups(deconv_res, deconvolution_test)

Arguments

deconv_res

A list containing results from the deconvolution process, including:

  • Deconvolution subgroups composition: the member features of each subgroup, per cell type

  • Deconvolution matrix: the original deconvolution result used to determine relevant features

deconvolution_test

A data.frame or matrix of deconvolution results (e.g., from another cohort). If cell groups were aggregated with aggregate_cell_groups() before computing deconv_res, aggregate the same groups here first; otherwise their features are missing and are set to NA.

Value

A data.frame with the projected subgroup features proportions: the same features, in the same order, as the "Deconvolution matrix" of deconv_res. Each subgroup is the median of its member features. Subgroups with no member in deconvolution_test, and training features missing from it, are set to NA with a warning; a warning also lists subgroups computed from only part of their members.