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WarrenLab / agptools

Tools for working with agp files
MIT License
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Clarification of flip command #8

Open SheepwormJM opened 2 months ago

SheepwormJM commented 2 months ago

Hi,

Just a quick check question: In your manual here (https://warrenlab.github.io/agptools/) you say that flip will reverse-complement a sequence in the scaffold to re-orient a misassembled piece.

But does it complement the sequence, or just reverse it?

Thanks, Jenni

esrice commented 2 months ago

It reverse-complements the sequence.

On Wed, Jun 19, 2024, 2:11 PM SheepwormJM @.***> wrote:

Hi,

Just a quick check question: In your manual here ( https://warrenlab.github.io/agptools/) you say that flip will reverse-complement a sequence in the scaffold to re-orient a misassembled piece.

But does it complement the sequence, or just reverse it?

Thanks, Jenni

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SheepwormJM commented 2 months ago

Thanks Edward. Why does it complement it and not just reverse the sequence? I'm just thinking about the impact of this on reading genes.

esrice commented 2 months ago

To reverse-complement a sequence is to both reverse and complement it

On Wed, Jun 19, 2024, 3:03 PM SheepwormJM @.***> wrote:

Thanks Edward. Why does it complement it and not just reverse the sequence? I'm just thinking about the impact of this on reading genes.

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