Forwarding this email exchange as it could be useful to some users.
Hi Nicolas,
Thank you for your answer. It made the trick !
I thought it would much more complicated to handle a large set of sequences.
Thanks a lot,
I will come back to you if I need more technical information,
Regards,
Laurent
-----Message d'origine-----
De : Nicolas Rodriguez [mailto:rodriguezn@babraham.ac.uk]
Envoyé : jeudi 18 juin 2015 12:30
À : DRAZEK Laurent
Cc : nicolas lenovere; general@discussion.melting.p.re.sf.net
Objet : RE: Melting 5 - How to run in batch mode
Je reviens vers vous, suite à notre précédent échange.
Comme je vous l'indiquais, nous aimerions nous appuyer sur MELTING5
pour calculer des delta_G0 pour des hybrides ADN/ADN.
Nous avons un très grand nombre de valeurs à compiler et votre package
semble avoir un mode "batch" qui nous serait bien utile.
Je n'ai trouvé aucune documentation associée à ce mode "batch", en
particulier comment formater le fichier d'entrée contenant les séquences.
Pourriez-vous m'aider ?
So your question is how to use melting to calculate melting temperatures for a large number of sequences.
For this you can use the 'melting-batch' script or directly the 'melting.BatchMain' java class.
The format of the command is: 'melting-batch [OPTIONS] sequencefile'
Here [OPTIONS] mean all of you standard melting options, excluding the -S or -C. Then a sequencefile, this has to be the last argument.
How to format the sequence file? You need to put one sequence per line, for each non empty line in the file a melting temperature will be calculated.
You have the option to also put the complementary sequence, on the same line, separated by a space or tab.
Let us know if it work for you,
Thanks,
Nico
If you would like to refer to this comment somewhere else in this project, copy and paste the following link:
Forwarding this email exchange as it could be useful to some users.
Hi Nicolas,
Thank you for your answer. It made the trick !
I thought it would much more complicated to handle a large set of sequences.
Thanks a lot,
I will come back to you if I need more technical information,
Regards,
Laurent
-----Message d'origine-----
De : Nicolas Rodriguez [mailto:rodriguezn@babraham.ac.uk]
Envoyé : jeudi 18 juin 2015 12:30
À : DRAZEK Laurent
Cc : nicolas lenovere; general@discussion.melting.p.re.sf.net
Objet : RE: Melting 5 - How to run in batch mode
Hi Laurent,
So your question is how to use melting to calculate melting temperatures for a large number of sequences.
For this you can use the 'melting-batch' script or directly the 'melting.BatchMain' java class.
The format of the command is: 'melting-batch [OPTIONS] sequencefile'
Here [OPTIONS] mean all of you standard melting options, excluding the -S or -C. Then a sequencefile, this has to be the last argument.
How to format the sequence file? You need to put one sequence per line, for each non empty line in the file a melting temperature will be calculated.
You have the option to also put the complementary sequence, on the same line, separated by a space or tab.
Let us know if it work for you,
Thanks,
Nico