Dear Brooke, Many thanks for this added functionality, it works great! Only one thing - 'Always include zero' can only be used with one track at a time, whereas I would often need to make figures that compare multiple tracks. For now I will make the tracks individually and then copy them together in Illustrator, but when you get a chance in the future, it will help to be able to have multiple tracks with zero included
Kind Regards, Jernej On Sep 5, 2009, at 1:38 AM, Brooke Rhead wrote: > Hello Jernej, > > We have added the functionality you requested to the wiggle track > configure page, but it is only available on our test site at the > moment. The test site is here: > > http://genome-test.cse.ucsc.edu > > On the wiggle track configuration page, look for a new "Always > include zero: ON/OFF" line. Please let us know if you encounter > any problems. > > Most likely, the new functionality will make it to our main site > around September 21st. Be aware that there are a lot of > experimental tracks that have not been through the QA process on > the test site. > > -- > Brooke Rhead > UCSC Genome Bioinformatics Group > > > On 08/09/09 12:24, Jernej Ule wrote: >> Thanks - in the meantime I'll artificially add data with y=0. Let >> me know once this option is available. >> Cheers, >> Jernej >> On Aug 7, 2009, at 11:37 PM, Brooke Rhead wrote: >>> Hi Jernej, >>> >>> I see what you mean. You would like the y=0.0 line to be visible >>> no matter what. This is an option that is not available >>> currently. However, I have told our developers about it, and it >>> is something that could possibly be implemented in the future. >>> It will not likely happen anytime soon, though. >>> >>> Thanks for your clear explanation and suggestion. >>> >>> -- >>> Brooke Rhead >>> UCSC Genome Bioinformatics Group >>> >>> >>> On 08/07/09 01:18, Jernej Ule wrote: >>>> Dear Brooke >>>> Many thanks for your advice. The example I explained was >>>> simplified - your explanation now does solve it, however I have >>>> also a more general problem. I want that the y axis always >>>> includes a 0, regardless of data range, but at the same time, I >>>> want the auto-scale to data view. I have both negative or >>>> positive data in my Bedgraph, and depending on which genomic >>>> window one chooses, I might have only negative or only positive >>>> values. I show an example of negative values here: >>>> ------------------------------------------------------------------- >>>> ----- >>>> I'd like the result to look more like this: >>>> ------------------------------------------------------------------- >>>> ----- >>>> I was able to get this by adding a value 0 at position 6330. >>>> I don't normally have 0 values in my data, so I'd prefer if >>>> there was another way to get a 0 on the y axis. I tried setting >>>> the following; >>>> Draw y indicator lines: at y = 0.0: ON at y =0 >>>> But it didn't make any difference, unless I had a 0 value in the >>>> data, such as in the second case, where you now see a y line - >>>> unfortunately, the y line at 0 doesn't show up in the first >>>> example (even though the settings are the same!) >>>> I'd appreciate your further advice. >>>> Jernej >>>> On Aug 6, 2009, at 8:56 PM, Brooke Rhead wrote: >>>>> Hello Jernej, >>>>> >>>>> Thank you for searching the mailing list archives for an answer >>>>> to your question. >>>>> >>>>> You can control the vertical viewing range on track controls >>>>> page for your custom track. Click on either the blue track >>>>> name, or on the thing blue/gray bar just to the left of your >>>>> track in the Genome Browser image. You will be presented with >>>>> several options for the display of your bedGraph track. Change >>>>> the "Vertical viewing range" to min: 0 and max: 4, then set >>>>> "Data view scaling" to "use vertical viewing range >>>>> setting" (instead of "auto-scale data to view"). >>>>> >>>>> The items with a value of 1 should now take up one quarter of >>>>> the vertical space in the track. >>>>> >>>>> -- >>>>> Brooke Rhead >>>>> UCSC Genome Bioinformatics Group >>>>> >>>>> >>>>> On 08/06/09 04:16, Jernej Ule wrote: >>>>>> Hi, >>>>>> I still encounter the same problem as was described by a last >>>>>> year's post: >>>>>> https://lists.soe.ucsc.edu/pipermail/genome/2008-August/ >>>>>> 016943.html >>>>>> It was supposed to be fixed, but is not. Or maybe my problem >>>>>> is slightly different, so let me describe it. I have data >>>>>> ranging from 1 to 4. The data with values of 1 do show up, >>>>>> but only as very tiny dots. Instead I'd like the Y axis to >>>>>> start at 0, so that the values with 1 reach up to one quarter >>>>>> of those with values of 4. Can this be done? >>>>>> Thanks, >>>>>> Jernej >>>>>> _______________________________________________ >>>>>> Genome maillist - [email protected] >>>>>> https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
