Package: TmCalculator 1.0.2
TmCalculator: Melting Temperature of Nucleic Acid Sequences
This tool is extended from methods in Bio.SeqUtils.MeltingTemp of python. The melting temperature of nucleic acid sequences can be calculated in three method, the Wallace rule (Thein & Wallace (1986) <doi:10.1016/S0140-6736(86)90739-7>), empirical formulas based on G and C content (Marmur J. (1962) <doi:10.1016/S0022-2836(62)80066-7>, Schildkraut C. (2010) <doi:10.1002/bip.360030207>, Wetmur J G (1991) <doi:10.3109/10409239109114069>, Untergasser,A. (2012) <doi:10.1093/nar/gks596>, von Ahsen N (2001) <doi:10.1093/clinchem/47.11.1956>) and nearest neighbor thermodynamics (Breslauer K J (1986) <doi:10.1073/pnas.83.11.3746>, Sugimoto N (1996) <doi:10.1093/nar/24.22.4501>, Allawi H (1998) <doi:10.1093/nar/26.11.2694>, SantaLucia J (2004) <doi:10.1146/annurev.biophys.32.110601.141800>, Freier S (1986) <doi:10.1073/pnas.83.24.9373>, Xia T (1998) <doi:10.1021/bi9809425>, Chen JL (2012) <doi:10.1021/bi3002709>, Bommarito S (2000) <doi:10.1093/nar/28.9.1929>, Turner D H (2010) <doi:10.1093/nar/gkp892>, Sugimoto N (1995) <doi:10.1016/S0048-9697(98)00088-6>, Allawi H T (1997) <doi:10.1021/bi962590c>, Santalucia N (2005) <doi:10.1093/nar/gki918>), and it can also be corrected with salt ions and chemical compound (SantaLucia J (1996) <doi:10.1021/bi951907q>, SantaLucia J(1998) <doi:10.1073/pnas.95.4.1460>, Owczarzy R (2004) <doi:10.1021/bi034621r>, Owczarzy R (2008) <doi:10.1021/bi702363u>).
Authors:
TmCalculator_1.0.2.tar.gz
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TmCalculator.pdf |TmCalculator.html✨
TmCalculator/json (API)
# Install 'TmCalculator' in R: |
install.packages('TmCalculator', repos = c('https://junhuili1017.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/junhuili1017/tmcalculator/issues
Last updated 3 years agofrom:a508aca285. Checks:OK: 1 WARNING: 6. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Oct 24 2024 |
R-4.5-win | WARNING | Oct 24 2024 |
R-4.5-linux | WARNING | Oct 24 2024 |
R-4.4-win | WARNING | Oct 24 2024 |
R-4.4-mac | WARNING | Oct 24 2024 |
R-4.3-win | WARNING | Oct 24 2024 |
R-4.3-mac | WARNING | Oct 24 2024 |
Exports:c2scheck_filterchem_correctioncomplementGCprint.TmCalculators2csalt_correctionTm_GCTm_NNTm_Wallace
Dependencies: