Uses of Class
biolockj.module.report.taxa.TransformTaxaTables

Packages that use TransformTaxaTables

Package	Description
biolockj.module.diversity
biolockj.module.report.taxa

Uses of TransformTaxaTables in biolockj.module.diversity

Subclasses of TransformTaxaTables in biolockj.module.diversity

Modifier and Type	Class and Description
class	ShannonDiversity

Uses of TransformTaxaTables in biolockj.module.report.taxa

Subclasses of TransformTaxaTables in biolockj.module.report.taxa

Modifier and Type	Class and Description
class	AddPseudoCount
class	LogTransformTaxaTables This utility is used to log-transform the raw OTU counts on Log10 or Log-e scales.
class	NormalizeByReadsPerMillion Normalize each sample for sequencing depth by reporting each value as the number of counts per million counts in a given sample.
class	NormalizeTaxaTables This utility is used to normalize and/or log-transform the raw OTU counts using the formulas: Normalized OTU count formula = (RC/n)*((SUM(x))/N)+1 Relative abundance formula = Log(log_base) [ (RC/n)*((SUM(x))/N)+1 ] The code implementation supports (log_base = e) and (log_base = 10) which is configured via Constants.REPORT_LOG_BASE property.