https://github.com/gear-genomics/indigo

Indigo: SNV and InDel Discovery in Chromatogram traces obtained from Sanger sequencing of PCR products
https://github.com/gear-genomics/indigo

alignment alleles chromatogram-traces crispr-analysis crispr-cas9 gear-genomics indel-discovery indels indigo pcr pcr-products sanger-chromatograms sanger-sequencing sequencing variant-calling variants

Last synced: 3 months ago
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Indigo: SNV and InDel Discovery in Chromatogram traces obtained from Sanger sequencing of PCR products

• Host: GitHub
• URL: https://github.com/gear-genomics/indigo
• Owner: gear-genomics
• License: gpl-3.0
• Created: 2017-03-06T19:42:06.000Z (about 9 years ago)
• Default Branch: main
• Last Pushed: 2025-11-18T14:10:18.000Z (5 months ago)
• Last Synced: 2025-11-18T16:36:37.819Z (5 months ago)
• Topics: alignment, alleles, chromatogram-traces, crispr-analysis, crispr-cas9, gear-genomics, indel-discovery, indels, indigo, pcr, pcr-products, sanger-chromatograms, sanger-sequencing, sequencing, variant-calling, variants
• Language: JavaScript
• Homepage: https://www.gear-genomics.com/indigo/
• Size: 1.19 MB
• Stars: 36
• Watchers: 3
• Forks: 9
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

          


  



[Indigo](https://www.gear-genomics.com/indigo) is a rapid single-nucleotide variant (SNV) and insertion/deletion (InDel) discovery method in Chromatogram traces obtained from Sanger sequencing of PCR products. It can separate a mutated and wildtype allele and aligns both alleles against a reference sequence or wildtype chromatogram. Indigo discovers mutations generated by genome editing tools such as CRISPR/Cas9 or TALENs.

Indigo Online Method

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[Indigo](https://www.gear-genomics.com/indigo) can be run online as a web application at [https://www.gear-genomics.com/indigo](https://www.gear-genomics.com/indigo).