hi,

there is a perl script for parsing the dope scrores in the below link

http://salilab.org/modeller/wiki/Plotdope

run the script, get the output and then plot it using the gnuplot

prabhakar

On 4/21/06, 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 > http://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. help (biocompr) > 2. CHAINS_all Updates (Alex Brown) > 3. Re: CHAINS_all Updates (Modeller Caretaker) > > > > ---------- Forwarded message ---------- > From: "biocompr" biocompr@163.com > To: modeller_usage@salilab.org > Date: Thu, 20 Apr 2006 01:22:45 +0800 (CST) > Subject: [modeller_usage] help > hi: > I find the question in the past posts ,bu i do not find the answer. > > I am new user to the modeler, I have started with the basic tutorial, I > have difficulty with plotting the dope scores with GNU plot, > when I plot the two dat files '1bdma_dope.dat','TVLDH_dope.dat'(from the > tutorials folder) I get the graph plotted(Dope score vs Residue Index), but > the two graphs are not aligned, as shown in the tutorial html file. how to > align the graphs. hope someone could help me with this silly doubt. > > Thank you very much. > > > > > > > > > > > > > > 你 知 道 中 国 每 年 耗 费 多 少 一 次 性 筷 子 吗 ？ > 450亿双！相当于170万立方米的木材，大约需要砍伐2500万棵大树！ http://www.126.com/ > > ---------- Forwarded message ---------- > From: "Alex Brown" alexander.brown@tech.mrc.ac.uk > To: modeller_usage@salilab.org > Date: Thu, 20 Apr 2006 13:31:02 +0100 > Subject: [modeller_usage] CHAINS_all Updates > > Hi. > > > > I was wondering if it is possible to get updates to the CHAINS_all.seq > database. > > > > If not, where can I get hold of an updated PIR-formatted file of PDB > sequences with values in the resolution field? > > > > Many thanks, > > > > Alex Brown > > > ---------- Forwarded message ---------- > From: Modeller Caretaker modeller-care@salilab.org > To: Alex Brown alexander.brown@tech.mrc.ac.uk > Date: Thu, 20 Apr 2006 14:28:28 -0700 > Subject: Re: [modeller_usage] CHAINS_all Updates > Alex Brown wrote: > > I was wondering if it is possible to get updates to the CHAINS_all.seq > > database. > > > > If not, where can I get hold of an updated PIR-formatted file of PDB > > sequences with values in the resolution field? > > You can rebuild the databases yourself from the original PDB files. See > the relevant page in the Modeller wiki: > http://salilab.org/modeller/wiki/Rebuilding_sequence_databases > > Alternatively, you can download updates, when available, from our > supplemental data file download page, which is linked from that wiki > page and from the main 'download & installation' page. > > Ben Webb, Modeller Caretaker > -- > modeller-care@salilab.org http://www.salilab.org/modeller/ > Modeller mail list: http://salilab.org/mailman/listinfo/modeller_usage > > > > _______________________________________________ > modeller_usage mailing list > modeller_usage@salilab.org > http://salilab.org/mailman/listinfo/modeller_usage > > >

-- Prabhakar.G Project Assistant, Bioinformatics and Data Management, National Institute of Virology, 20-A, Dr. Ambedkar Road, Pune-411 007 Maharastra India