Read expression data

Read a nested list of expression data inputs in order to generate a list of giotto-native exprObj

Usage

readExprData(
  data_list,
  sparse = TRUE,
  cores = determine_cores(),
  default_feat_type = NULL,
  verbose = TRUE,
  provenance = NULL,
  expression_matrix_class = c("dgCMatrix", "DelayedArray")
)

Arguments

data_list

(nested) list of expression input data

sparse

(boolean, default = TRUE) read matrix data in a sparse manner

cores

number of cores to use

default_feat_type

(optional) default feat_type to use

verbose

be verbose

provenance

(optional) provenance information

expression_matrix_class

class of expression matrix to use (e.g. 'dgCMatrix', 'DelayedArray')

Details

mylistA = list('a' = matrix(1:5), 'b' = matrix(1:5)) depth(mylistA)

mylistB = list(A = list('a' = matrix(1:5), 'b' = matrix(1:5)), B = list('c' = matrix(1:5),'d' = matrix(1:5))) depth(mylistB)

mylistC = list('RNA' = list('RAW' = list('cell' = matrix(1:5), 'nucleus' = matrix(6:10)), 'NORM' = list('cell' = matrix(11:15),'nucleus' = matrix(20:25))), 'PROT' = list('RAW' = list('cell' = matrix(16:20)))) depth(mylistC)

mymatD = matrix(data = 1:4)