1. DirichletMultinomial::bestgrp
    Data objects used for examples and the vignette
    rda| rds
    DMNGroup
  2. DirichletMultinomial::fit
    Data objects used for examples and the vignette
    rda| rds
    list
  3. DirichletMultinomial::xval
    Data objects used for examples and the vignette
    csv| xlsx| json| ndjson| rda| rds
    data.frame|254 x 3
  4. InteractiveComplexHeatmap::rand_mat
    A random matrix
    csv| json| rda| rds
    matrix|60 x 60
  5. MicEco::gg_13_5_16S
    16S copy numbers for GreenGenes 13_5 database OTUs
    csv| xlsx| json| ndjson| rda| rds
    data.frame|203451 x 2
  6. microbiomeMarker::caporaso
    16S rRNA data from "Moving pictures of the human microbiome"
    rda| rds
    phyloseq
  7. microbiomeMarker::cid_ying
    16S rRNA data of 94 patients from CID 2012
    rda| rds
    phyloseq
  8. microbiomeMarker::ecam
    Data from Early Childhood Antibiotics and the Microbiome (ECAM) study
    rda| rds
    phyloseq
  9. microbiomeMarker::enterotypes_arumugam
    Enterotypes data of 39 samples
    rda| rds
    phyloseq
  10. microbiomeMarker::kostic_crc
    Data from a study on colorectal cancer (kostic 2012)
    rda| rds
    phyloseq
  11. microbiomeMarker::oxygen
    Oxygen availability 16S dataset, of which taxa table has been summarized for python lefse input
    rda| rds
    phyloseq
  12. microbiomeMarker::pediatric_ibd
    IBD stool samples
    rda| rds
    phyloseq
  13. microbiomeMarker::spontaneous_colitis
    This is a sample data from lefse python script, a 16S dataset for studying the characteristics of the fecal microbiota in a mouse model of spontaneous colitis.
    rda| rds
    phyloseq
  14. microbiomeutilities::hmp2
    Test data 2
    rda| rds
    phyloseq
  15. microbiomeutilities::zackular2014
    Test data
    rda| rds
    phyloseq
  16. MicrobiotaProcess::hmp_aerobiosis_small
    (Data) Small subset of the HMP 16S dataset
    json| rda| rds
  17. MicrobiotaProcess::kostic2012crc
    (Data) Genomic analysis identifies association of Fusobacterium with colorectal carcinoma (2012)
    rda| rds
    MPSE
  18. MicrobiotaProcess::mouse.time.mpse
    (Data) An example data
    rda| rds
    MPSE
  19. MicrobiotaProcess::test_otu_data
    (Data) simulated dataset.
    rda| rds
    MPSE
  20. microViz::ibd
    IBD study data in phyloseq object.
    rda| rds
    phyloseq
  21. microViz::shao19
    Gut microbiota relative abundance data from Shao et al. 2019
    rda| rds
    phyloseq