tm_wallace: Calculate the melting temperature using the 'Wallace rule'

In TmCalculator: Genome-Wide Nucleic Acid Melting Temperature Profiling and Multi-Omics Integration

Calculate the melting temperature using the 'Wallace rule'

Description

The Wallace rule is often used as rule of thumb for approximate melting temperature calculations for primers with 14 to 20 nt length.

Usage

tm_wallace(gr_seq, ambiguous = FALSE)

Arguments

gr_seq	Pre-processed sequence(s) in 5' to 3' direction. This should be the output from to_genomic_ranges() function.
ambiguous	Ambiguous bases are taken into account to compute the G and C content when ambiguous is TRUE.

Value

Returns a list of sequences with updated Tm attributes

Author(s)

Junhui Li

References

Thein S L , Lynch J R , Weatherall D J , et al. DIRECT DETECTION OF HAEMOGLOBIN E WITH SYNTHETIC OLIGONUCLEOTIDES[J]. The Lancet, 1986, 327(8472):93.

Examples

input_seq = c('acgtTGCAATGCCGTAWSDBSY','acgtTGCCCCGGCCGCGCCGTAWSDBSY') #for wallace rule
gr_seq <- to_genomic_ranges(input_seq)
out <- tm_wallace(gr_seq, ambiguous = TRUE)
out
out$Options

TmCalculator documentation built on Aug. 28, 2026, 5:09 p.m.