Fetches a data matrix from summarized experiments

Source: R/object.R

Function which extracts a matrix from summarizedexperiments contained within a TimeSeries_object. The matrix is extracted by name.

exp_matrix(time_object, matrix_name)

Arguments

time_object

A timeseries object

matrix_name

Character for the name of the matrix. 'raw' or 'norm' are the standard names found unless user modifications have been made

Value

The extracted matrix

Examples


TS_object <- new('TimeSeries_Object',
                 group_names=c('IgM','LPS'),group_colors=c("#e31a1c","#1f78b4"),DE_method='DESeq2',
                 DE_p_filter='padj',DE_p_thresh=0.05,DE_l2fc_thresh=1,
                 PART_l2fc_thresh=4,sem_sim_org='org.Hs.eg.db',Gpro_org='hsapiens')
TS_object <- TS_load_example_data(TS_object)
stored_matrix<-exp_matrix(TS_object,'raw')