App Releases and Updates Q4 2023
Improved Metabolic Models with ModelSeed 2 Apps
Our metabolic modeling team released newand apps for building and refining genome-scale models. These apps greatly improve energy metabolism reconstruction capabilities of the models and are capable of accurately predicting ATP yields across all microbes, outperforming current gold standard tools! This release includes a new template for Archaea model reconstruction for better metabolic models drafted from archaeal genomes. Metabolic models generated with ModelSeed2 have more accurate pathway annotations and biochemical representations for important subsystems including methanogenesis, iron redox reactions, sulfate reduction, and nitrogen cycling. We encourage our metabolic modeling users to run these new apps and explore the improved models for their own organisms of interest. Check out the submitted demonstrating platform improvements with 5000 diverse microbial genomes.
Detect Viral Sequences with VirSorter2
New Summarize GenomeSet App
Use theapp to produce a useful report for all the Genomes in your GenomeSet. This report can include taxonomic classification for the genomes, counts of feature types, quality completeness and contamination measures from CheckM, and hits for some commonly relevant functional genes for environmental bioelement processing.
Pre-Print and Beta Testing for Genome Classifier Suite
A recently released
SpeciesTreeBuilder Apps Bugfix
Many users submitted tickets to Help Board for support.reporting an error when using our . We’re happy to report that our support team identified and squashed the bug that generated the “App Startup Error: Unable to find object reference” error. We encourage all users to submit bugs, features requests, and technical questions to our