mskcc / cwl-commandlinetools

Central location for CWL CommandLineTools

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bedtools merge #42

Closed rhshah closed 5 years ago

rhshah commented 5 years ago

version: 2.28

location: https://github.com/arq5x/bedtools2/releases/download/v2.28.0/bedtools

[x] CWL
[x] Container
[x] Test

bedtools merge -i out.bedgraph -d 400 > out.bed

shalabhsuman commented 5 years ago

I am going to give Distance between features (-d) as 300 default and at the same time, provide user the option of entering any other value. Let me know if that default needs to be modified

shalabhsuman commented 5 years ago

44

rhshah commented 5 years ago

I think we don't need to provide any default. I just thought of giving 400 as if the features are that far apart they get merged as abra2 operated on the window size of 400. But we can run it without any -d option.