comparison_matrix {ISAnalytics} | R Documentation |
Takes a list of integration matrices referring to different quantification
types and merges them in a single data frame that has multiple
value columns, each renamed according to their quantification type
of reference.
comparison_matrix( x, fragmentEstimate = "fragmentEstimate", seqCount = "seqCount", barcodeCount = "barcodeCount", cellCount = "cellCount", ShsCount = "ShsCount" )
x |
A named list of integration matrices, ideally obtained via import_parallel_Vispa2Matrices_interactive or import_parallel_Vispa2Matrices_auto. Names must be quantification types. |
fragmentEstimate |
The name of the output column for fragment estimate values |
seqCount |
The name of the output column for sequence count values |
barcodeCount |
The name of the output column for barcode count values |
cellCount |
The name of the output column for cell count values |
ShsCount |
The name of the output column for Shs count values |
A tibble
Other Analysis functions:
CIS_grubbs()
,
compute_abundance()
,
cumulative_count_union()
,
cumulative_is()
,
is_sharing()
,
iss_source()
,
purity_filter()
,
sample_statistics()
,
separate_quant_matrices()
,
threshold_filter()
,
top_integrations()
fs_path <- system.file("extdata", "fs.zip", package = "ISAnalytics") fs <- unzip_file_system(fs_path, "fs") af_path <- system.file("extdata", "asso.file.tsv.gz", package = "ISAnalytics" ) af <- import_association_file(af_path, root = fs, import_iss = FALSE, report_path = NULL ) matrices <- import_parallel_Vispa2Matrices(af, c("seqCount", "fragmentEstimate"), mode = "AUTO", report_path = NULL, multi_quant_matrix = FALSE ) multi_quant <- comparison_matrix(matrices) head(multi_quant)