findPD {amplican} | R Documentation |
Use to filter reads that are most likely PRIMER DIMERS.
findPD(aln, cfgT, PRIMER_DIMER = 30)
aln |
(data.frame) Should contain events from alignments in
|
cfgT |
(data.frame) Needs columns Forward_Primer, ReversePrimer and Amplicon. |
PRIMER_DIMER |
(numeric) Value specifying buffer for PRIMER DIMER
detection. For a given read it will be recognized as PRIMER DIMER when
alignment will introduce gap of size bigger than: |
(logical) Where TRUE indicates event classified as PRIMER DIMER
Other filters:
findEOP()
,
findLQR()
file_path <- system.file("extdata", "results", "alignments", "raw_events.csv", package = "amplican") aln <- data.table::fread(file_path) cfgT <- data.table::fread( system.file("extdata", "results", "config_summary.csv", package = "amplican")) findPD(aln, cfgT)