separate_quant_matrices: Separate a multiple-quantification matrix into single...

In calabrialab/ISAnalytics: Analyze gene therapy vector insertion sites data identified from genomics next generation sequencing reads for clonal tracking studies

Separate a multiple-quantification matrix into single quantification matrices.

Description

The function separates a single multi-quantification integration matrix, obtained via comparison_matrix, into single quantification matrices as a named list of tibbles.

Usage

separate_quant_matrices(
  x,
  fragmentEstimate = "fragmentEstimate",
  seqCount = "seqCount",
  barcodeCount = "barcodeCount",
  cellCount = "cellCount",
  ShsCount = "ShsCount",
  key = c(mandatory_IS_vars(), annotation_IS_vars(), "CompleteAmplificationID")
)

Arguments

x	Single integration matrix with multiple quantification value columns, obtained via comparison_matrix.
fragmentEstimate	Name of the fragment estimate values column in input
seqCount	Name of the sequence count values column in input
barcodeCount	Name of the barcode count values column in input
cellCount	Name of the cell count values column in input
ShsCount	Name of the shs count values column in input
key	Key columns to perform the joining operation

Value

A named list of data frames, where names are quantification types

See Also

quantification_types

Other Utilities: as_sparse_matrix(), comparison_matrix(), enable_progress_bars(), export_ISA_settings(), generate_Vispa2_launch_AF(), generate_blank_association_file(), generate_default_folder_structure(), import_ISA_settings(), transform_columns()

Examples

data("integration_matrices", package = "ISAnalytics")
separated <- separate_quant_matrices(
    integration_matrices
)

calabrialab/ISAnalytics documentation built on Nov. 2, 2023, 8:57 p.m.