Hi all,
Now I got the location of a TSS-promoter for one gene.
chr1 :198906525 - 198906959
And I want to use the Homer to find enhancers for this promoter.
Finding Super Enhancers using Homer:
$ findPeaks <tag directory> -i <input tag directory> -style super -o auto
I can using makeTagDirectory to get the <input tag directory> from alignment as follows:
makeTagDirectory Test/ 31513_TH0.rmdup.bam
But I don't know how to get the "tag directory", I try:
makeTagDirectory Promoter/ TSS.bed
In the TSS.bed, only one location of the TSS :
chr11 198906525 198906959
My question is how to get the TSS tag directory, please?
Best,
Jenny
Now I got the location of a TSS-promoter for one gene.
chr1 :198906525 - 198906959
And I want to use the Homer to find enhancers for this promoter.
Finding Super Enhancers using Homer:
$ findPeaks <tag directory> -i <input tag directory> -style super -o auto
I can using makeTagDirectory to get the <input tag directory> from alignment as follows:
makeTagDirectory Test/ 31513_TH0.rmdup.bam
But I don't know how to get the "tag directory", I try:
makeTagDirectory Promoter/ TSS.bed
In the TSS.bed, only one location of the TSS :
chr11 198906525 198906959
My question is how to get the TSS tag directory, please?
Best,
Jenny
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