Spacedust is a collaborative effort with the amazing @milot.bsky.social and Johannes Soeding.
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Spacedust is available at
🚀 github.com/soedinglab/s...
Install Conda Package via
🐍 conda install -c bioconda spacedust
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Spacedust recovers previously annotated gene clusters e.g. operons, antiviral defense systems, and BGCs. It also identifies several more instances of CRISPR subtype III-E in the GTDB. 4/6

We searched all-vs-all 1308 bacterial genomes from different genera. 1) Spacedust assigns 58% of all 4.2M genes & 35% of the unannotated genes into conserved gene clusters. 2) It offers better functional association prediction based on the congruence of KEGG module IDs.
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Spacedust finds all gene clusters significantly conserved between any two genomes in a set of input genomes, by iteratively merging smaller clusters to maximize the statistical significance of the degree of clustering and order/strand conservation, therefore being reference-free.
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Spacedust finds all gene clusters significantly conserved between any two genomes in a set of input genomes, by iteratively merging smaller clusters to maximize the statistical significance of the degree of clustering and order/strand conservation, therefore being reference-free.
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