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Identify transcripts from genome positions

Hi,

I have a large list (20,000+ rows) of C. elegans genomic positions in three columns: chromosome, start position and end position.

Does anyone know how I can identify which transcripts (if any) overlap with each position?

Thanks!

genome
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updated by lieven.sterck lieven.sterck • written by jomiles26 • jomiles26

1 answer

Sounds like a job for bedtools, more preciously bedtools intersect

have you looked into that?

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written by lieven.sterck lieven.sterck

I haven't used bedtools before, I'll look into it. Thanks

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written by jomiles26 • jomiles26

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