Bigwig to bed conversion on Windows OS without command line
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7.6 years ago
ahramkim1128 ▴ 10

Hi,

I am a fly geneticist and have no experience about programming language.

I saw several papers using ChIP-seq analysis and wanted to check whether some transcription factors bind to locus of my interest gene.

I downloaded seq data and tried to analyze it using EaSeq on Windows OS.

Unfortunately, EaSeq doesn't support bigwig format, which should be converted to other formats, such as wig or bed.

Is there any bigwigtowig or bigwigtobed conversion program without command line?

Command line would be a very big hurdle for basic biologist T^T.

Of course, I have plan to learn programming language, but it's hard for me to wait until I finish learning.

It will be very helpful for my future work if you suggest nice and simple conversion tool.

Thank you for your help in advance.

ChIP-Seq bigwigtobed windows EaSeq • 3.1k views
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The easiest route would be to upload the files to Galaxy and have it do the conversion.

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There is a wig/bedgraph to bigwig, but bigwig to wig/bed. Could you inform the link (bigwig to wig)?

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Indeed, I guess the don't provide a converter. Just borrow someone's Mac then.

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What kind of analysis do you need to do in EaSeq? A bigwig should be able to be loaded directly to FlyBase or UCSC for visualization.

If you have your heart set on EaSeq, then you may be able to load the bigwig into UCSC and then use the Table Browser tool to download it as a bed file.

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