Create a mock Cell Ranger h5 file

Mock up a Cell Ranger h5 file for examples and testing.

mockCellRangerH5(filepath, n.genes = 100, n.cells = NULL, cell.names = NULL)

Arguments

filepath

String containing a path to the output file.

n.genes

Integer indicating the number of genes

n.cells

Integer indicating the number of cells

cell.names

Character vector containing the cell names. The length of this vector is used as the total number of cells.

Value

A h5 file mimicking a typical Cell Ranger output is created at filepath.

Author

Jayaram Kancherla

Examples

temp <- tempfile(fileext = ".h5")
mockCellRangerH5(temp, cell.names = LETTERS)
rhdf5::h5ls(temp)
#>               group         name       otype  dclass  dim
#> 0                 /       matrix   H5I_GROUP             
#> 1           /matrix     barcodes H5I_DATASET  STRING   26
#> 2           /matrix         data H5I_DATASET   FLOAT 1651
#> 3           /matrix     features   H5I_GROUP             
#> 4  /matrix/features feature_type H5I_DATASET  STRING  100
#> 5  /matrix/features       genome H5I_DATASET  STRING  100
#> 6  /matrix/features           id H5I_DATASET  STRING  100
#> 7  /matrix/features     interval H5I_DATASET  STRING  100
#> 8  /matrix/features         name H5I_DATASET  STRING  100
#> 9           /matrix      indices H5I_DATASET INTEGER 1651
#> 10          /matrix       indptr H5I_DATASET INTEGER   27
#> 11          /matrix        shape H5I_DATASET INTEGER    2