Package index
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agp_gut - American Gut Project gut microbiome dataset
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dcst.view() - Select a stored dCST policy view
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filter.asv() - Filter ASV count matrix by library size (samples) and prevalence (features)
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linf.csts() - Truncated dominant community state types with configurable low-support handling
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linf.dcst.landmark.pipeline() - Landmark-aware dCST pipeline
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linf.dominant.features() - Dominant-feature assignment
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linf.feature.labels() - Format feature labels for dominant-feature assignments and dCSTs
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linf.hypercube.embedding() - Extended homogeneous-coordinate hypercube embedding
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linf.landmarks() - Landmark points for dCST dominance-lineages
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normalize.linf() - L-infinity normalization (row-wise)
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print(<linf.csts>) - Print method for
"linf.csts" -
refine.linf.csts() - Refine a dCST hierarchy by one level
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summary(<linf.csts>) - Summarize dCST hierarchy statistics
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transfer.dcsts() - Transfer samples into a frozen dCST hierarchy
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valencia13k_dcst_depth2_merged - Valencia 13k merged depth-2 dCST assignments
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valencia13k_dcst_depth3_merged - Valencia 13k merged depth-3 dCST assignments
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valencia2k - Valencia 2k vaginal microbiome dataset
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valencia_linf_hypercube_1k - Valencia 1k four-component hypercube embedding example