Distance Between Peaks in Macs Peak-calling data
I have run Macs Peak-calling for different time points on yeast data sets. Now I want to know the distance between the neighboring peaks in a file for each time point ( There are a number of peaks in each file and I want to know the distance between each neighboring peak). Using some tool in Linux or maybe R.
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saamar.rajput
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Bedtools should do the job for you: http://bedtools.readthedocs.org/en/latest/
Check for "bedtools spacing" or "bedtools closest with -d and -io options".
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