Question: Wiggle File 2 Bed File
1
gravatar for Varun Gupta
7.5 years ago by
Varun Gupta1.1k
United States
Varun Gupta1.1k wrote:

Hi I have a wig file(variable step) I want to convert this wig file to a bed file. Can anyone tell me how to do that.

Thanks in advance

Regards Varun

bed wiggle format conversion • 10k views
ADD COMMENTlink modified 7.5 years ago by Alex Reynolds28k • written 7.5 years ago by Varun Gupta1.1k
3
gravatar for Pierre Lindenbaum
7.5 years ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum121k wrote:

googling for wig2bed returns a python script : http://code.google.com/p/chip-seq/source/browse/formatconvert/wig2bed.py ( http://code.google.com/p/bedops/wiki/wig2bed )

ADD COMMENTlink written 7.5 years ago by Pierre Lindenbaum121k

you mean: http://code.google.com/p/chip-seq/source/browse/branches/formatconvert/wig2bed.py ? that's fixedStep. Though the latter tool you mention seems to support variable step.

ADD REPLYlink written 7.5 years ago by brentp23k
2
gravatar for Alex Reynolds
6.8 years ago by
Alex Reynolds28k
Seattle, WA USA
Alex Reynolds28k wrote:

The wig2bed application that is part of the BEDOPS suite will convert both variable- and fixed-step WIG inputs to UCSC BED output.

ADD COMMENTlink modified 2.7 years ago • written 6.8 years ago by Alex Reynolds28k
1
gravatar for Damian Kao
7.5 years ago by
Damian Kao15k
USA
Damian Kao15k wrote:

Here is a perl script to convert wig to a bedgraph format: http://genomewiki.ucsc.edu/images/9/9d/FixStepToBedGraph_pl.txt

ADD COMMENTlink written 7.5 years ago by Damian Kao15k
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