Getting the peaks on the perticular coordinate
0
0
Entering edit mode
2.1 years ago

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 • 554 views
ADD COMMENT
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
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
0
Entering edit mode

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

ADD REPLY

Login before adding your answer.

Traffic: 1463 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6