Converting bedgraph file to wig file

Question

[margo]

I have a bedgraph file which I have loaded up into R and I am wanting to convert it to a wig file for further analysis. In R, my bedgraph file looks like this:

1   0
2   0
3   0
4   0

I am wanting to add the header variableStep chrom=1 as the first line. I then want to convert this bedgraph file to wig. Does anyone know how to do this? I want my output file to look like this:

variableStep chrom=1
1   0
2   0
3   0
4   0

[ATpoint]

x-posted https://support.bioconductor.org/p/9145939/ Please indicate crossposts across communities.

Answer 1

[Istvan Albert]

You can use the tool called bedGraphToBigWig that is part of kentUtils:

• https://github.com/ENCODE-DCC/kentUtils

with conda you could use:

mamba install ucsc-bedgraphtobigwig

Edit: if you absolutely need wiggle then use bigwigtowig of the same toolset