Re: [modeller_usage] modeller_usage Digest, Vol 7, Issue 56
Dear sir/madam,
I have a doubt in plotting the graph for calculating the DOPE Score using GNUPLOT. In GNUPLOT using the command 'plot "TvLDH.profile" using 1:42 with lines'. (From the Tutorial ) Only a single graph is shown but in the tutorial 2 lines of 2 profiles are shown.(TVLDH.profile showing red & green ) My question is how dow we compare the DOPE Score of 2 or more profiles using GNU plot. Please give me a posetive reply
Regards Salam Pradeep Bioinformatics Center North-East Institute of Science & Technology Jorhat, Assam, India
On 8/19/08, modeller_usage-request@salilab.org < modeller_usage-request@salilab.org> wrote: > > Send modeller_usage mailing list submissions to > modeller_usage@salilab.org > > To subscribe or unsubscribe via the World Wide Web, visit > https://salilab.org/mailman/listinfo/modeller_usage > or, via email, send a message with subject or body 'help' to > modeller_usage-request@salilab.org > > You can reach the person managing the list at > modeller_usage-owner@salilab.org > > When replying, please edit your Subject line so it is more specific > than "Re: Contents of modeller_usage digest..." > > > Today's Topics: > > 1. Rino Ragno ? fuori ufficio/ is out of office > (Rino.Ragno@uniroma1.it) > 2. Rino Ragno ? fuori ufficio/ is out of office > (Rino.Ragno@uniroma1.it) > 3. Re: problem with ligand modelling (Modeller Caretaker) > 4. Re: modeller_usage Digest, Vol 7, Issue 54 (sanjay singh) > > > ---------------------------------------------------------------------- > > Message: 1 > Date: Mon, 18 Aug 2008 16:03:39 +0200 > From: Rino.Ragno@uniroma1.it > Subject: [modeller_usage] Rino Ragno ? fuori ufficio/ is out of office > To: modeller_usage@salilab.org > Message-ID: > > OF5B8A35B2.ED41D512-ONC12574A9.004D3D24-C12574A9.004D3D25@Uniroma1.it > > Content-Type: text/plain; charset="us-ascii" > > > Risposta automatica dal 17/08/2008 fino al 10/09/2008 > > This is an automatic reply. > I will not available till Sep 10th 2008. During this period I will try to > read > your message and to send a reply. > > Best Regards > Rino >
salam pradeep wrote: > I have a doubt in plotting the graph for > calculating the DOPE Score using GNUPLOT. In GNUPLOT using the command > 'plot "TvLDH.profile" using 1:42 with lines'. (From the Tutorial ) Only > a single graph is shown but in the tutorial 2 lines of 2 profiles are > shown.(TVLDH.profile showing red & green ) > My question is how dow we compare the DOPE Score of 2 or more profiles > using GNU plot. Please give me a posetive reply
As described in the tutorial, there is a plot_profiles.py script in the zip file that can do that. You can't do it directly with GNUPLOT since you have to add gaps to the two profiles to account for the gaps in the alignment, so that everything lines up. There is also a user-contributed Perl script in the Modeller wiki that does something similar.
Ben Webb, Modeller Caretaker
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salam pradeep