Getting the peaks on the perticular coordinate

0

Entering edit mode

2.7 years ago

luckysardar171 ▴ 20

Hello folks i have generated peaks from the macs2 from the output bed i want to get the peaks on the specific coordinates can any one suggest me any option for example chr1 5019400-6000000 get all peaks on this perticular coordinates i have tried bedtools intersect some how it did not worked any other method is avilable please suggest me

Thank you

ChIP-Seq NGS MACS2 analysis • 666 views

ADD COMMENT • link updated 2.7 years ago by ATpoint 85k • written 2.7 years ago by luckysardar171 ▴ 20

0

Entering edit mode

What did not work? "did not work" is not a valid error message". bedtools intersect is one of the de facto standards for such a task. Alternatively, sort and bgzip your file and use tabix.

ADD REPLY • link 2.7 years ago by ATpoint 85k

0

Entering edit mode

ATpoint there was no error msg gave me blank output. my objective is to get the peaks in that specific coordinates

ADD REPLY • link 2.7 years ago by luckysardar171 ▴ 20

0

Entering edit mode

I cannot help you if you do not add any details like code or data.

ADD REPLY • link 2.7 years ago by ATpoint 85k

Login before adding your answer.