Description Usage Arguments Examples
Peform the actual fixing action (i.e update or delete)
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1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 | # Read in FCS files with inconsistencies
fcs_files <- list.files(system.file("extdata", "GvHD_QC", package = "cytoqc"), full.names = TRUE)
qc_cf_list <- cqc_load_fcs(fcs_files)
# Check for marker inconsitencies
groups <- cqc_check(qc_cf_list, type = "marker")
# Attempt to fix them automatically
match_result <- cqc_match(groups, ref = c("CD14 PerCP", "CD15 FITC", "CD33 APC", "CD45 PE", "FSC-Height", "SSC-Height", "Time"))
# Add a manual match that automatic matching could not find
match_result <- cqc_match_update(match_result, map = c("PTPRC PE" = "CD45 PE"))
# Apply the fix to the original cytoframes
cqc_fix(match_result)
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