| autoDeletion | autoDeletion |
| calc.Score | calc.Score |
| calcIntScore_C | Internal Apoderoides Functions |
| calcOutScore_C | Internal Apoderoides Functions |
| deleteAnomaly | deleteAnomaly |
| extractOTUbyRankName_C | Internal Apoderoides Functions |
| findSubTips_C | Internal Apoderoides Functions |
| findUpperNode | Internal Apoderoides Functions |
| get.upperRank | get.upperRank |
| getAllCentroids | getAllCentroids |
| getAllCentroids_C | Internal Apoderoides Functions |
| getAllRankNames | Internal Apoderoides Functions |
| getRankCentroid_C | Internal Apoderoides Functions |
| getTipNo_C | Internal Apoderoides Functions |
| is.monophyleticByRank | Internal Apoderoides Functions |
| testRankList | testRankList |
| testTree | testTree |