% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/data-hmp_u01_gc_coarse.R
\docType{data}
\name{hmp.u01.gc.coarse}
\alias{hmp.u01.gc.coarse}
\title{HMP/U01 Coarsened Giant-Component Graph}
\format{
A named list with components:
\describe{
  \item{adj_list}{Adjacency list of length `1828`, with 1-based integer
  neighbor indices.}
  \item{weight_list}{Parallel list of positive edge weights.}
  \item{vertex_data}{Data frame with one row per coarse vertex and columns
  `vertex_id`, `size`, `cst`, `subcst`, `dcst.depth1.absorb`,
  `dcst.depth1.rare`, `dcst.depth2.absorb`, `dcst.depth2.rare`, `ph`, and
  `log10_reads`.}
  \item{graph_info}{Named list summarizing provenance and graph-level
  metadata, including the original and coarsened vertex counts, selected
  `k`, edge count, and coarsening rounds.}
}
}
\source{
Derived from the publicly available HMP+U01 16S amplicon analysis
  workflow used in the `chm_paper` project. Raw bundled artifacts and a
  provenance note are available under
  `inst/extdata/hmp_u01_gc_coarse/`.
}
\usage{
hmp.u01.gc.coarse
}
\description{
A bundled coarsened graph derived from the giant connected component of the
HMP+U01 16S amplicon iKNN graph used in the HMP/U01 layout-selection study.
The upstream graph came from the `>=1%` relative-abundance plus PCA branch
with `k = 3`, after restricting to the biologically meaningful major
component. The graph was then greedily coarsened in two rounds from `6474`
vertices to `1828` supernodes.
}
\details{
The object is intended for examples and vignettes on real-world 3D layout
comparison. It is small enough to ship with the package while preserving the
arm-like graph structure that motivated the tuned preset analysis.
}
\examples{
data(hmp.u01.gc.coarse)
length(hmp.u01.gc.coarse$adj_list)
head(hmp.u01.gc.coarse$vertex_data[, c("vertex_id", "size", "cst", "subcst")])
}
\keyword{datasets}
