And here some more preaching:
Screen (eg Power Point): Do 400x400 pixels, 800x800 at most if full screen
Submit paper: 1200x1200 is far enough to print fairly well in full page - most journals these days truncate to less to send to referees anyway. Dont use 32-bit color for line graphs, best is to submit these as eps!
Accepted paper: use the formula (dpi journal recommends) x (final intended size in inches) to decide the size in pixels.
... sorry for the trivialties. Tassos On Jan 31, 2008, at 10:40, Clemens Vonrhein wrote:
To not only say what not to do, maybe also some tips on how to convert/resize/scale images - for Linux with Imagemagick tools. * converting between formats (PNG seems something everyone is happy with these days): % convert Image.jpg Image.png % ps2epsi Image.ps # gets rid of all the white border # fluff % convert Image.epsi Image.png * resizing (no need for a 3000x2000 image - 400x400 to 800x800 is usually big enough I guess): % convert -resize 400x400 Image.jpg Image.png * cutting a bit out of an image (makes it easier to concentrate on the important bit): % display Image.jpg -> left mouse click in image -> Transform -> Crop -> left mouse and pan (is that the right word?) to mark the rectangular region -> Crop -> File -> Save (as Image.png) * screen shot of some picture/window/plot (to show error messages, CCP4i input window etc etc) a) get e.g. your CCP4i loggraph window on screen b) open another terminal (make sure this terminal doesn't overlap with the CCP4i loggraph window) and run % import test.png c) the mouse cursor should change to a "+" sign (kind of): just click into the window you want to get a picture off - it will be saved as test.png (control with "display test.png") Lots of other tools I guess. For more info on ImageMagick see e.g. http://www.imagemagick.org/script/index.php http://www.imagemagick.org/Usage/ or % convert -help Clemens On Thu, Jan 31, 2008 at 08:58:04AM +0000, Frank von Delft wrote:Actually, it's not book keeping, it's simple courtesy -- and not only on a BB: an attachment is lazy, and a large attachment is downright rude.I am routinely stuck with a slow connection (travelling), and others are*permanently* stuck with one. So please be nice... ;) phx. Anastassis Perrakis wrote:Dear all -Sorry to intervene on a 'book keeping' issue, but indeed over the last few months an increasing number of people (Jerry is not the first, soJerry please do not take it personally) attach pictures etc. I thinkin a bb standard practice dictates to only use text - if illustrations are needed to explain the problem, you can put them in eg a web site.Some text like that was in the 'code of conduct' off ccp4bb in the past, but I could no longer find it.Thus apologies if I am wrong and policies have changed, but maybe theccp4 crowd could tell us what is the suggested policy. And, if you really want to send an image please do bother to make itsmall. The initial posting had a 630k image, which it took me 1 min to make 20k and it still makes the point (attached so I can also violatethe rules i am suggesting - I love inconsistency). Thanks, Tassos On Jan 30, 2008, at 20:11, Jerry McCully wrote:Dear All: Thanks a lot for the prompt reply on this topic of salt sensitive complex. Attached please find one ITC final figure done under 25mM Tris(pH8.0), 60mM NaCl.As mentioned before, the ionization of Tris will interfere withthe ITC experiments. Therefore I am sure of my binding results. Can anyone give me some comments on this ITC experiment?Basically do these two proteins bind to each other? If so, how shouldI improve the ITC experiments to get a similar affinity shown by BIAcore(about 0.5uM)? Thanks again. Jerry------------------------------------------------------------------- -----Hi Jerry, Tris can cause problems, you are better off using something like HEPES, and HEPES should be ok at pH 8. (Buffers with anethane-sulphonic acid group tend to be the best - those ending in'ES', so MES, TES and HEPES) FYI, the error on your K is bigger than the actual measurement - 1.49x10^5 ± 1.5x10^5.Signal to noise to is probably your enemy, which is making the curve fitting difficult. Changing buffer may help this - there may be some non-specific component to what you're seeing - increasing salt a bitor dropping in something like 5% glycerol may help with this. Would you be able to post a jpeg/pdf of the curve? Regards, David On 25/01/2008, Jerry McCully wrote:Dear All:Firstly I would like to thank many folks here for giving megreatideas several days ago. The following are some updates for this question.I did ITC experiments again using 25mMTris(pH8), 60mM NaCl (lowsaltcondition). But things still turn out to be a little weird.I increased the concentration of both proteins(60uM in the celland1200uM in the syringe). At the end of the ITC, I saw a little of precipitation of both the proteins.Fortunately I can roughly fit the curve this time. However, theheat wasstill low, around 1Kcal/mole of per injectant. I am not sure aboutthefitting statistics. N 1.10 ±0.17 K 1.49E5 ±1.5E5 DH -893.5 ±213 DS 20.7 Was the enthalpy was offset by the ionization of Tris buffer? Can I use Hepes buffer around pH8 to do ITC? Welcome any comments about the statistics and suggestions on howtoimprove the ITC experiments.have a nice weekend. Jerry------------------------------------------------------------------- -----Helping your favorite cause is as easy as instant messaging. You IM, we give. Learn more. <http://im.live.com/Messenger/IM/Home/?source=text_hotmail_join>------------------------------------------------------------------- -----Shed those extra pounds with MSN and The Biggest Loser! Learn more. <http://biggestloser.msn.com/> <test-ITC-012608.JPG>-- *************************************************************** * Clemens Vonrhein, Ph.D. vonrhein AT GlobalPhasing DOT com * * Global Phasing Ltd. * Sheraton House, Castle Park * Cambridge CB3 0AX, UK *-------------------------------------------------------------- * BUSTER Development Group (http://www.globalphasing.com) ***************************************************************
