Hello, Joseph, > Read in 29743 markers and values in chromosome base format. This just means that you have data on chr1, so chr1 size/10000 = 29743.
The truncation of your scores to integers will not help. As we discussed, you could either just use GG native types which support floating values, or consider mapping your values onto the integers from 0 to 1000 for BED use. Of coures the GG native format will give you better control. Be sure during the import form to give each (custom)track imported a unique name. Best wishes -Galt On 08/03/10 16:04, Joseph Kingston wrote: > Greetings, > > I am having trouble graphing my data-sets. No matter what data values I use I > always get back the exact same graph. I made sure I was calling it a > different > name so that it didn't overwrite the old data-set. I can email the graph to > you > if you want to see it. The correlation coefficient between two completely > different data sets is 1. This indicates that my data isn't really being > graphed > at all. It seems to be using a default data set each time rather than the > data I > import. I have tried clicking "Click here to reset the browser user interface > settings to their defaults." I am still getting the same problem. > > The steps I am taking to get this error are as follows: > ________________________________ > 1) click the "manage customer tracks" in the "Genomes" page. With the > following > settings: > > clade genome assembly position or search term gene image width > Mammal Vertebrate Deuterostome Insect Nematode Other Chicken Zebra finch > Lizard X. tropicalis Zebrafish Tetraodon Fugu Stickleback Medaka Lamprey > Dec. > 2008 (Zv8/danRer6) July 2007 (Zv7/danRer5) Mar. 2006 (Zv6/danRer4) May 2005 > (Zv5/danRer3) > > Click here to reset the browser user interface settings to their defaults. > Apply for free workshop > 2) Add custom tracks > 3) Copy and paste in data from a bed file. Here is a sample of the data: > > browser position chr1:44006-44066 > track name="leukemia_immatureT" > #Chromosome StartPosition EndPosition RegionName Score > chr1 44006 44066 region_0 0.727264185479 > chr1 46023 46083 region_1 0.560017387231 > chr1 47390 47601 region_2 2.02842618698 > chr1 48251 48311 region_3 0.0196590689408 > chr1 80315 80375 region_4 0.0588082434926 > chr1 83080 83140 region_5 0.212616217385 > chr1 84485 84545 region_6 0.303664994145 > > 4) Repeat steps 1-3 for a dataset with different name and different values. > 5) Click on "Home link", then "Genome Graphs" link. > 6) Change settings: <b>Your browser does not support JavaScript so some > functionality may be missing!</b> <b>Your browser does not support > JavaScript so some functionality may be missing!</b> > > clade: Mammal Vertebrate Deuterostome Insect Nematode Other genome: > Chicken > Zebra finch Lizard X. tropicalis Zebrafish Tetraodon Fugu Stickleback Medaka > Lamprey assembly: Dec. 2008 (Zv8/danRer6) July 2007 (Zv7/danRer5) Mar. > 2006 > (Zv6/danRer4) May 2005 (Zv5/danRer3) > > > 7) Click on "import" btn > 8) Change settings: > > group: Custom Tracks Mapping and Sequencing Tracks Genes and Gene Prediction > Tracks mRNA and EST Tracks Expression and Regulation Comparative Genomics > Variation and Repeats All Tracks All Tables track: hlk84_input > leukemia_immatureT > > table: ct_hlk84input_2741 > > name of data set: > description: > display min value: max value: > label values: 9) Click "submit" see message: > Table Import in Progress > > > <b>Your browser does not support JavaScript so some functionality may be > missing!</b> > > Read in 29743 markers and values in chromosome base format. > These data are now available in the drop-down menus on the main page for > graphing. > That is Strange that it says "Read in 29743 markers" when I only included 7 > regions for this example. > 10) Click Ok. > 11) Change settings: > > graph -- nothing -- Hulk84 VS Input 1 Hulk VS Input 1 in black blue purple > red > orange yellow green gray > > graph -- nothing -- Hulk84 VS Input 1 Hulk VS Input 1 in > ________________________________ > As I look at my two different graphs they look exactly the same. The data I > just > imported does not match the data in the graph. > > Thank you for your help with this problem. I am so close I can taste it! > Joseph > > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
