Question: Bedtools shift in a defined chromosomal position
0
gravatar for ste.lu
11 months ago by
ste.lu60
ste.lu60 wrote:

Hi All!

Do you know if there is a way to use bedtools shift tool in a defined chromosomal postions. In other words, shift +10 bp only the regions that are on chr1 in beteween 1 and 10000.

E.g:

chr1 10 100

chr1 20000 21000

bedtools shift -s 10 -chr_reg chr1:1-10000

chr1 20 110

chr1 20000 21000

Thanks!

bedtools • 203 views
ADD COMMENTlink modified 11 months ago by Pierre Lindenbaum128k • written 11 months ago by ste.lu60
0
gravatar for Pierre Lindenbaum
11 months ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum128k wrote:

extract the regions that are not in " chr1:1-10000"

run bedtools in chr1:1-10000

concatenate both files.

ADD COMMENTlink written 11 months ago by Pierre Lindenbaum128k
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