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strainspy - Strain Level Microbiome Wide Association Studies
Fits statistical models to detect microbial strains associated with a phenotype. For small sample sizes, models can be fitted using empirical Bayes maximum a posteriori (MAP) priors to improve detection power. Supports various experimental design scenarios, including repeated measures.
Last updated
softwaremicrobiomemetagenomicsmicrobialstraindifferentialexpressionregressionexperimentaldesignsequencing
5.82 score 13 stars 46 scriptsLDWeaver - Genomewide Epistasis Analysis on Bacteria
Perform genomewide epistasis analysis by evaluating the LD structure in bacteria.
Last updated
softwarebacterial-genome-analysisbioinformaticsepistasis-analysislinkage-disequilibriummicrobial-genomicscpp
3.18 score 15 stars 4 scripts