Upload colorful bed files to protein paint¶
Assign colors to each unique name in the bed file¶
Input¶
chr10 10376029 10376040 MA0035.3.GATA1 11.9388 +
chr4 22866505 22866523 MA0140.2.GATA1.TAL1 12.3636 +
chr6 128962975 128962986 MA0035.3.GATA1 13.3878 -
chr1 223888603 223888621 MA0140.2.GATA1.TAL1 10.4545 -
chr10 72923272 72923290 MA0140.2.GATA1.TAL1 12.5455 +
chr11 44257011 44257022 MA0035.3.GATA1 12.6531 -
chr8 57564294 57564313 GATA1_HUMAN.H11MO.0 13.1364 -
chr14 66544756 66544774 MA0140.2.GATA1.TAL1 11.6727 -
chr2 14866278 14866289 MA0035.3.GATA1 11.2449 -
chr7 105075524 105075543 GATA1_HUMAN.H11MO.0 11.5909 -
Usage¶
hpcf_interactive
module load conda3
source activate /home/yli11/.conda/envs/py2
bed_to_bedjs_withName_category_color.py input.bed
Output: input.bed.bedjs.sorted.gz
json format for protein paint¶
{
"type":"bedj",
"name":"GATA1",
"file":"PATH/TO/input.bed.bedjs.sorted.gz",
"stackheight":20,
"stackspace":1,
"onerow":1
}