Introduction | Installation | Load the package | Discover available studies | Inspect the study index | Load one study | Inspect the study structure | Load the study metadata | Inspect the original metabolite profile | Load the harmonized metabolite profile | Inspect the taxa abundance profile | Load an annotation table | Inspect study-level annotation metadata | Extract assay matrices for downstream analysis | Subset a study object | Load multiple studies and modalities | Session information
Package: HuMMANet 0.99.3
Nalin Arora
HuMMANet: Curated Paired Human Microbiome-Metabolome Study Data
Provides access to curated paired human microbiome-metabolome study bundles available through Bioconductor ExperimentHub. The package organizes matched sample metadata, species abundance profiles, original and harmonized metabolite profiles, and study-specific annotation resources including metabolite identifier mappings, microbial producer annotations, disease associations, pathway annotations, and drug similarity matches. The resource is designed to support consistent and reproducible cross-study microbiome-metabolome analyses.
Authors:
HuMMANet_0.99.3.tar.gz
HuMMANet_0.99.3.tar.gz(r-4.7-any)HuMMANet_0.99.3.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
HuMMANet/json (API)
| # Install 'HuMMANet' in R: |
| install.packages('HuMMANet', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/shivangiv-iiitd/hummanet/issues
On BioConductor:HuMMANet-0.99.3(data/experiment 3.24)
experimentdataexperimenthubhomo_sapiens_datamicrobiomedatadatapkg
Last updated from:88bea3d1bb. Checks:1 NOTE, 3 OK. Indexed: yes.
This is a data package. Data packages may be large and do not get checked across all platforms.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 158 | ||
| linux-devel | OK | 315 | ||
| source / vignettes | OK | 317 | ||
| linux-release | OK | 332 |
Exports:HuMMANetHuMMANet_available_modalitiesHuMMANet_load_modalityHuMMANet_load_studyHuMMANet_resource_tableHuMMANet_studiesHuMMANet_study_indexHuMMANetHub
Dependencies:abindAnnotationDbiAnnotationHubaskpassBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiocManagerBiocVersionBiostringsbitbit64blobcachemclicpp11crayoncurlDBIdbplyrDelayedArraydplyrExperimentHubfastmapfilelockgenericsGenomicRangesgluehttrhttr2IRangesjsonliteKEGGRESTlatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeMultiAssayExperimentopensslpillarpkgconfigpngpurrrR6rappdirsrlangRSQLiteS4ArraysS4VectorsSeqinfoSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselectutf8vctrswithrXVectoryaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| HuMMANet: Paired Human Microbiome-Metabolome Study Data | HuMMANet-package package-HuMMANet |
| HuMMANet Accessor | HuMMANet |
| List Available Modalities for a Study | HuMMANet_available_modalities |
| Load a Single Modality for One Study | HuMMANet_load_modality |
| Load Curated Data for One Study | HuMMANet_load_study |
| HuMMANet Resource Table | HuMMANet_resource_table |
| List Available Studies | HuMMANet_studies |
| Study Index for HuMMANet | HuMMANet_study_index |
| HuMMANet ExperimentHub Records | HuMMANetHub |