create 'negative' bed annotation from bed

Question

[noodle]

Hi community,

Is there a convenient command line tool that accepts and bed (and chr lengths) and returns what is excluded from the bed? Like a 'negative' of the bed (or other annotation file)? TIA!

Answer 1

[ATpoint]

bedtools complement

[noodle]

Exactly what I need, thanks!

[Ram]

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