Considering if there's an other format for displaying in the way I want, I guessed WIG might be the answer for the input format, so I edited the input according to the guide. ============ chr17 41196311 41196313 13 chr17 41196314 41196314 12 chr17 41196315 41196316 13 chr17 41196317 41196317 14 chr17 41196318 41196318 15 ..... ============
The data above was transformed into this : ============ variableStep chrom=chr17 span=1 41196311 13 41196312 13 41196313 13 41196314 12 41196315 13 41196316 13 41196317 14 41196318 15 ...... ============ However the error occurred : ============ *Error* Unrecognized format line 1 of custom track: variableStep chrom=chr17 span=1 (note: chrom names are case sensitive) ============ I have no idea what the cause was. (What I meant was chr17, neither 'chr17_ctg5_hap1' nor 'chr17_gl000205_random'.) In addition, I also wonder in case that my intension is : ============ variableStep chrom=chr17 span=1 41196311 13 41196312 13 41196313 14 41196314 12 41196315 12 41196316 12 41196317 15 41196318 15 =========== how can I rearrange it in a brief form, that is, my data has 'variable steps', literally. If I use the header somewhat weirdly, I might write like this : =========== variableStep chrom=chr17 span=2 41196311 13 variableStep chrom=chr17 span=1 41196313 14 variableStep chrom=chr17 span=3 41196314 12 =========== I think it's so trivial and a sort of chores, but I just need to make it. Would you give some advice? Best regards, Kim 2011/3/18 Jiwoong Kim <[email protected]> > I'm applying my data in bedGraph format into the genome browser. > ========= > chr1 1 100 30 > chr1 101 150 0 > chr1 151 160 50 > chr1 161 162 49 > chr1 163 165 48 > .... > ========= > By default, I can see the data shown as separated bars, each of which > represents continuous base positions with a certain depth. > By the way, about the depth, the graph displays it as a number, and the > height of the graph is just used to make bars distinguished. > I would like to edit this so that I want to see it as a sort of histogram > with binwidth=1bp. 'Placental mammal conservation' track seems to show in > the way. > Though I tried to change the option below, the user custom track, into all > of the five options, including hide, dense, squish, so forth, > I could not find any to make it. As well, I also tried to do it by managing > function, but couldn't. > Would you please give me some advice to successfully configure? > > Best regards, > Kim > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
