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Convert SingleCellExperiment/SpatialExperiment/SpatialFeatureExperiment objects to list object for jazzPanda.

Source: R/get_vectors.R
convert_data.Rd

This function takes an object of class SingleCellExperiment, SpatialExperiment or SpatialFeatureExperimentreturns and returns a list object that is expected for the get_vector functions.

Usage

convert_data(x, sample_names, test_genes)

Arguments

x

a SingleCellExperiment or SpatialExperiment or SpatialFeatureExperiment object

sample_names

a vector of strings giving the sample names

test_genes

A vector of strings giving the name of the genes you want to create gene vector.

Value

outputs a list object with the following components

trans_lst

A list of named dataframes. Each dataframe refers to one sample and shows the transcript detection coordinates for each gene. The name matches the input sample_names

cm_lst

A list of named dataframes containing the count matrix for each sample. The name matches the input sample_names