Hi Jim
 I am trying to prepare a bed file to load as accustom track on the UCSC genome browser.
I have a data frame that looks like the one below.
> x
     V1    V2 V3
1 chr1 11255 55
2 chr1 11320 29
3 chr1 11400 45
4 chr2 21680 35
5 chr2 21750 84
6 chr2 21820 29
7 chr2 31890 46
8 chr3 32100 29
9 chr3 52380 29
10 chr3 66450 46
I would like to insert the following 4 lines at the beginning:
browser position chr1:1-10000
browser hide all
track type=wiggle_0 name=sample description=chr1_sample visibility=full
variableStep chrom=chr1 span=1
and then insert 2 lines before each chromosome:
track type=wiggle_0 name=sample description=chr2_sample visibility=full
vriableStep chrom=chr2 span=1
The final result should be tab delimited file that looks like this:
browser position chr1:1-10000
browser hide all
track type=wiggle_0 name=sample description=chr1_sample visibility=full
variableStep chrom=chr1 span=1
chr1 11255 55
chr1 11320 29
chr1 11400 45
track type=wiggle_0 name=sample description=chr2_sample visibility=full
variableStep chrom=chr2 span=1
chr2 21680 35
chr2 21750 84
chr2 21820 29
track type=wiggle_0 name=sample description=chr3_sample visibility=full
variableStep chrom=chr3 span=1
chr3 32100 29
chr3 32170 45
chr3 32240 45
Any kind of help or guidance will be much appreciated.
Joseph











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