Entering edit mode
3.9 years ago
stephan.erbe
•
0
Hello, I calculate recombination blocks from my vcf file and generate a bed file from it. This means, I calculate whether an SNP of my new plant line derived from wild-type (W) or crop-type (C) parent.
Chromosome StartBlock EndBlock Parent-Type
chr1H 143571 282977 B 32
chr1H 370062 5905342 W 218
chr1H 6098796 10763353 B 105
chr1H 11219346 11219346 W 1
chr1H 11261581 428922759 B 591
chr1H 429016392 452336649 W 104
chr1H 452399581 452399581 B 1
chr1H 452504621 465693168 W 66
chr1H 469006985 522100507 B 732
chr2H 125104 38127894 B 839
chr2H 39443140 42219353 W 54
chr2H 42456331 82046783 B 203
chr2H 85682952 519892921 W 76
chr2H 526837715 576189421 B 240
chr2H 576671737 583439924 W 63
chr2H 584163639 674643250 B 1265
I would like to be able to differentiate only the blocks for W and C in color. I found the RIdeogram package, but it appears to be for the human genome only. My data is from barley plants. Or can I easily do it with bar plots?
