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churchlab / AAV_fitness_landscape

Analysis for "Comprehensive fitness landscape of AAV capsid reveals a viral gene and enables machine-guided design"
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x01_process_fastqs.py #4

Open cn6659 opened 2 years ago

cn6659 commented 2 years ago

In the script, "x01_process_fastqs.py" middle_expr = '(?<=CCAC)([ACTG]{20})(?=CCAC)'

What is "CCAC"?

pierceogden commented 2 years ago

"CCAC" is the conserved sequences between the barcodes which are concatenated.

On Thu, Jul 7, 2022 at 3:09 PM cn6659 @.***> wrote:

In the script, "x01_process_fastqs.py" middle_expr = '(?<=CCAC)([ACTG]{20})(?=CCAC)'

What is "CCAC"?

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cn6659 commented 2 years ago

Thank you for your quick reply. If I use this script, how can I replace "CCAC"?