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Library to compare DNA sequences (diff, common blocks, etc.)

Project description

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GeneBlocks is a Python library to compare DNA sequences. It can be used to:

  • Find common blocks in a group of DNA sequences, to factorize them (e.g. only analyze or synthetize each common block once)
  • Highlight differences between sequences (insertions, deletions, mutations)
  • Transfer Genbank features from one record to another sharing similar subsequences.

At the Edinburgh Genome Foundry, we use GeneBlocks to optimize sequence assembly, explore sets of non-annotated sequences, or visualize the differences between different versions of a sequence, and re-annotate records coming from third parties such as DNA manufacturers.

Infos

PIP installation:

pip install geneblocks

Github Page

https://github.com/Edinburgh-Genome-Foundry/geneblocks

Live demos

Find common sequence blocks

Plot sequence diffs

Transfer Genbank features between records

License: MIT, Copyright Edinburgh Genome Foundry

More biology software

https://raw.githubusercontent.com/Edinburgh-Genome-Foundry/Edinburgh-Genome-Foundry.github.io/master/static/imgs/logos/egf-codon-horizontal.png

Geneblocks is part of the EGF Codons synthetic biology software suite for DNA design, manufacturing and validation.

Project details


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