Prepare a primer table for downstream analyses
prepare_primer_df(
input_fasta,
primer_length = 20,
GCcheck = FALSE,
GCmin = 0.4,
GCmax = 0.6,
GChalves = FALSE,
GCsimilarity = 0.1
)A string. Name or filepath of the input FASTA file.
A number. Sets the primer length. For applications involving two adjacent probes, the value should be set to two-fold the length of a single probe.
A logical. If TRUE, checks the GC contents of the primers and filters based on GCmin and GCmax.
A decimal. If GCcheck is performed, this parameter determines the minimum proportional GC content.
A decimal. If GCcheck is performed, this parameter determines the maximum proportional GC content.
A logical. If TRUE, checks the GC contents separately for both halves of the primers and filters based on GCsimilarity. For example for applications involving two adjacent probes.
A number. If GChalves is performed, this parameter determines the maximum proportional GC content difference between the primer halves.
A list containing sequence id conversions, primer matrix and a list of primers with their target sequences.