[BioRuby] Melting Temperature
McCreavy David
David.McCreavy at lhch.nhs.uk
Thu Oct 9 15:24:39 UTC 2014
Hi Rob,
Many thanks.
Kind Regards, David
David McCreavy
PACS/RIS Manager
Radiology Department
Direct Line 0151 600 1705 | Mobile 0788 7362868
Liverpool Heart & Chest Hospital NHS Foundation Trust
Thomas Drive | Liverpool | L14 3PE
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From: Rob Syme [mailto:rob.syme at gmail.com]
Sent: 09 October 2014 15:36
To: McCreavy David
Cc: bioruby at mailman.open-bio.org
Subject: Re: [BioRuby] Melting Temperature
Hi David
The 'bioroebe' gem includes Tm calculation.
$ gem install bioroebe
$ irb
> require 'bioroebe/calculate_melting_temperature'
> seq = 'ATGCTGACGTATGCGATCGTA'
> tm = CalculateMeltingTemperature.new
> tm.set_input(seq)
> tm.calculate_tm
# ==> 65.32166985617363
You can set oligo nucleotide concentration, Na+ conc and formamide_concentration.
The method isn't too complicated<http://rubydoc.info/gems/bioroebe/0.0.44/CalculateMeltingTemperature:calculate_tm>
Rob Syme
On Thu, Oct 9, 2014 at 6:10 AM, McCreavy David <David.McCreavy at lhch.nhs.uk<mailto:David.McCreavy at lhch.nhs.uk>> wrote:
Hi Guys,
Where in the API will I find methods for calculating Tm?
Kind Regards, David
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