Published April 24, 2024 | Version v1.0.0-NAR-revision-2024-04-24
Software Open

Automated primer design for genotyping CRISPR edited cells via amplicon sequencing

Creators

  • 1. Chan Zuckerberg Biohub, San Francisco

Description

Automated primer design for genotyping CRISPR edited cells via amplicon sequencing

Features:

  • Two modes: short (250 bp amplicon, MiSeq) and long (~3000 bp amplicon, PacBio)
  • Automatically relaxes the criteria if no primers are found initially
  • Invokes primer3 to perform thermodynamics calculation
  • Use Bowtie (alternatively BLAST) to check unintended PCR products

Files

Files (115.4 MB)

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md5:e6ec732ff1367a6f62afbf2124fb7cb1
115.4 MB Download

Additional details

Related works

Is referenced by
Preprint: 10.1101/2023.10.04.560793 (DOI)

Software

Repository URL
https://github.com/czbiohub-sf/GenoPrimer
Programming language
Python
Development Status
Active