Uses of Class
biolockj.module.implicit.parser.ParserModuleImpl

Packages that use ParserModuleImpl

Package	Description
biolockj.module.implicit.parser.r16s	This package contains Parser BioModules that convert the 16S taxonomy reports generated by 16S classifiers (such as RDP and QIIME) into standardized OTU abundance tables.
biolockj.module.implicit.parser.wgs	This package contains Parser BioModules that convert the WGS taxonomy reports generated by WGS classifiers (such as Kraken, Kraken2 Metaphlan2, or Humann2) into standardized OTU abundance tables.

Uses of ParserModuleImpl in biolockj.module.implicit.parser.r16s

Subclasses of ParserModuleImpl in biolockj.module.implicit.parser.r16s

Modifier and Type	Class and Description
class	QiimeParser This BioModules parses QiimeClassifier output reports to build standard OTU abundance tables.
class	RdpParser This BioModule parses RDP output files to build standard OTU abundance tables.

Uses of ParserModuleImpl in biolockj.module.implicit.parser.wgs

Subclasses of ParserModuleImpl in biolockj.module.implicit.parser.wgs

Modifier and Type	Class and Description
class	Humann2Parser This BioModules parses Humann2Classifier output reports to build standard OTU abundance tables. Samples IDs are found in the column headers starting with the 2nd column. The count type depends on the HumanN2 config properties.
class	Kraken2Parser This BioModules parses KrakenClassifier output reports to build standard OTU abundance tables.
class	KrakenParser This BioModules parses KrakenClassifier output reports to build standard OTU abundance tables.
class	Metaphlan2Parser This BioModules parses Metaphlan2Classifier output reports to build standard OTU abundance tables.