how can i get 300 dpi image or picture of higher resolution from pymol On 1/5/06, Robert Campbell <r...@post.queensu.ca> wrote: > Alexander, > > * alexander.paut...@bc.boehringer-ingelheim.com wrote: > > > > > > I would like to color my protein according to B-factor with a > self-defined > > > spectral palette (In this case I have put sequence conservation into the > > > Bfactor this column). I found that > > > spectrum b, blue_white_red, minimum=0, maximum=100 > > > would do part of the job with a predefined pallette > > > > > > - I could not find out how to define my own new color palette like > > > "white_red". > > > - Is there a way to "visualize" the color palettes before applying it to > > > an object? > > > > > * Seth Harris <set...@gmail.com> [2005-12-31 09:54] wrote: > > This is more half an answer than the real deal, but when I had the same > > issue I opted for the quick work around of setting the range from -100 to > > 100 for the blue-white-red palette which effectively made 0-100 correspond > > to white to red only since there were no negative B factors/conservation > > scores. > > e.g. > > spectrum b, blue_white_red, minimum=-100, maximum=100 > > > > I am curious for better answers, as you are, but haven't delved into the > > code to look for it myself, either. But perhaps this or some fine tuning > of > > the range or other pre-defined palettes will get done what you desire. > > I have a script, color_b.py, available on my website that allows one > to colour based on the value of the B-factor or occupancy columns. It > currently has the following colour gradients: > > 'bgr': blue -> green -> red > 'rgb': red -> green -> blue > 'bwr': blue -> white -> red > 'rwb': red -> white -> blue > 'bmr': blue -> magenta -> red > 'rmb': red -> magenta -> blue > 'rw' : red -> white > 'wr' : white -> red > 'gw' : green -> white > 'wg' : white -> green > 'bw' : blue -> white > 'wb' : white -> blue > 'gy' : green -> yellow > 'yg' : yellow -> green > 'gray' : black -> white > 'reversegray' : white -> black > > It isn't too difficult to add more gradients by following the recipes in > the "make_gradient" function in that script. It is also possible to set > the minimum and maximum values to tune the exact gradient limits as well > as to set the saturation and brightness (value) of the colours, via the > command options. > > Hope this helps. > > Cheers, > Rob > -- > Robert L. Campbell, Ph.D. <r...@post.queensu.ca> > Senior Research Associate phone: 613-533-6821 > Dept. of Biochemistry, Queen's University, fax: 613-533-2497 > Kingston, ON K7L 3N6 Canada http://adelie.biochem.queensu.ca/~rlc > PGP Fingerprint: 9B49 3D3F A489 05DC B35C 8E33 F238 A8F5 F635 C0E2 > > > ------------------------------------------------------- > This SF.net email is sponsored by: Splunk Inc. Do you grep through log files > for problems? Stop! Download the new AJAX search engine that makes > searching your log files as easy as surfing the web. DOWNLOAD SPLUNK! > http://ads.osdn.com/?ad_id=7637&alloc_id=16865&op=click > _______________________________________________ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users >
-- Ms. DIVYA DUBE Junior Research Fellow C/O Dr.R.Ravishankar MSB Division CDRI Lucknow,INDIA
