cohort_heatmap: Plot reordered heatmap according to sig.ranksum output

In vdumeaux/mixtR: Matched Interaction across Tissues (MIxT) data analysis

Description

Generate heatmap where genes and patients are reordered according the sig.ranksum() output for a given gene set expressed in a given tissue

Usage

cohort_heatmap(mixt.dat, mixt.ranksum, tissue, module, cohort.name = "all",
  orderByModule = NULL, orderByTissue = NULL, cl.height = 6)

Arguments

mixt.dat	Data object from matched tissues
mixt.ranksum	Output of sig.ranksum()
tissue	character string that provides the name of tissue of interest
module	character string that provides the name of the module of interest
cohort.name	character string that provides the name of the patient cohort we select patients from, defaults is set to 'all'
orderByModule	patient ordering can be based on another module/gene set expression.
orderByTissue	the tissue where the orderByModule module is found. Default is the same tissue.
cl.height	dimension of plotting area for clinical variable. Default = 6

Value

heatmap plot with patients and genes reordered according to sig.ranksum()

vdumeaux/mixtR documentation built on May 3, 2019, 4:58 p.m.