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Results from svg_test function

Source: R/data_results_svg_test.R
results_svg_test.Rd

Results from svg_test function

Arguments

results_svg_test

contains a list object, with the results obtained applying svg_test function to an external dataset from the spatialLIBD package. Below the code used to obtain 'results_svg_test'.

Value

Large List of 2 elements:

- "gene_results": a dataframe contains main edgeR test results;

- "estimated_y": a DGEList object contains the estimated common dispersion,

See also

svg_test

Author

Peiying Cai peiying.cai@uzh.ch, Simone Tiberi simone.tiberi@unibo.it

Examples

# load the input data:
# data("LIBD_subset", package = "DESpace")
# LIBD_subset
# 
# Fit the model via `svg_test` function. 
# Parameter `spe` specifies the input `SpatialExperiment` or `SingleCellExperiment` object, 
# while `cluster_col` defines the column names of `colData(spe)` containing spatial clusters. 
# To obtain all statistics, set `verbose` to `TRUE`.
# 
# set.seed(123)
# results_svg_test <- svg_test(spe = LIBD_subset,
#                                          cluster_col = "layer_guess_reordered",
#                                          verbose = FALSE)
# 
# save(results_svg_test, file = "./DESpace/data/results_svg_test.RData")