| Package | Description |
|---|---|
| biolockj.module.report.humann2 |
| Modifier and Type | Class and Description |
|---|---|
class |
AddMetadataToPathwayTables
This BioModule is used to add metadata columns to the HumanN2 pathway abundance, pathway coverage, and gene family
tables.
|
class |
RemoveLowPathwayCounts
This BioModule set low Pathway counts below a configured threshold to zero.
These low sample counts are assumed to be miscategorized or genomic contamination. |
class |
RemoveScarcePathwayCounts
This BioModule removes scarce pathways not found in enough samples.
Each pathway must be found in a configurable percentage of samples to be retained. |