Matching sets of genomic regions / Increase regions in BED

Description

Add requested base pairs to increase each feature.

Parameters

• The number of base pairs to subtract from the start coordinate (Integer) [0]
• The number of base pairs to add to the end coordinate (Integer) [0]
• Define additions based on strand (yes, no) [no]
• Define additions as a fraction of the feature's length (yes, no) [no]
• The fraction to subtract from the start coordinate (Decimal) [0.0]
• The fraction to add to the end coordinate (Decimal) [0.0]

Details

This tool increases the size of each feature in a feature file be a user-defined number of bases. It restricts the resizing to the size of the chromosome (i.e. no start < 0 and no end > chromosome size).

Output

The output is a BED file.

References

This tool uses the slopBed function of the BEDTools package. Please cite the article:

Quinlan AR and Hall IM, 2010. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics. 26, 6, pp. 841–842.

Please see the BEDTools homepage for more details.