microbialARC
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WhatsGNU-ATB
WhatsGNU-ATB PublicA custom reimplementation of WhatsGNU optimised for the scale of AllTheBacteria. It uses LMDB-backed sharded storage (8 shards) with numpy for hashing. The query tool is also custom-built for this …
Python
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SILOSim
SILOSim PublicA data-driven framework that profiles per-site bacterial genome variability and simulates evolution from it. From a single genome assembly, SILOSim builds a map of per-site entropy and mobile genet…
Python
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- THRESHER Public
THRESHER is a framework that replaces fixed cutoffs with data-driven phylothresholds - the SNP thresholds corrected for phylogenetic topology and inferred directly from each dataset's genomic structure.
microbialARC/THRESHER’s past year of commit activity - SILOSim Public
A data-driven framework that profiles per-site bacterial genome variability and simulates evolution from it. From a single genome assembly, SILOSim builds a map of per-site entropy and mobile genetic elements, then runs forward-time simulation weighted by observed variation.
microbialARC/SILOSim’s past year of commit activity - CURED Public
microbialARC/CURED’s past year of commit activity - WhatsGNU-ATB Public
A custom reimplementation of WhatsGNU optimised for the scale of AllTheBacteria. It uses LMDB-backed sharded storage (8 shards) with numpy for hashing. The query tool is also custom-built for this database format.
microbialARC/WhatsGNU-ATB’s past year of commit activity - Redcarpet Public
microbialARC/Redcarpet’s past year of commit activity
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