1. ChIPseeker::gsminfo
    Information Datasets
    csv| xlsx| json| ndjson| rda| rds
    data.frame|103398 x 14
  2. ChIPseeker::tagMatrixList
    Information Datasets
    json| rda| rds
    list
  3. ChIPseeker::ucsc_release
    Information Datasets
    csv| xlsx| json| ndjson| rda| rds
    data.frame|112 x 4
  4. clusterProfiler::DE_GSE8057
    Datasets gcSample contains a sample of gene clusters.
    csv| xlsx| json| ndjson| rda| rds
    data.frame|1251 x 3
  5. clusterProfiler::gcSample
    Datasets gcSample contains a sample of gene clusters.
    json| rda| rds
    list
  6. epiSeeker::demo_bmdata
    demo base modification data
    rda| rds
    bmData
  7. epiSeeker::demo_peak
    demo peak file
    rda| rds
    GRanges
  8. epiSeeker::gsminfo
    Information Datasets
    csv| xlsx| json| ndjson| rda| rds
    data.frame|103398 x 14
  9. epiSeeker::peakAnno
    Example data of peak annotation
    rda| rds
    csAnno
  10. epiSeeker::peakAnnoList
    Example data of a list of peak annotation
    rda| rds
    list
  11. epiSeeker::pwm_obj
    motif reference for Homo sapiens
    rda| rds
    PFMatrixList
  12. epiSeeker::seq2gene_result
    Result of seq2gene
    json| rda| rds
    character
  13. epiSeeker::tagMatrix
    Example data of tagMatrix
    csv| json| rda| rds
    matrix|664 x 500
  14. epiSeeker::ucsc_release
    Information Datasets
    csv| xlsx| json| ndjson| rda| rds
    data.frame|112 x 4
  15. GeoTcgaData::gene_cov
    a data.frame of gene length and GC content
    csv| xlsx| json| ndjson| rda| rds
    data.frame|27341 x 2
  16. GeoTcgaData::geneExpress
    a data.frame of gene expression data
    csv| xlsx| json| ndjson| rda| rds
    data.frame|10779 x 2
  17. GeoTcgaData::GSE66705_sample2
    a matrix of gene expression data in GEO
    csv| json| rda| rds
    matrix|999 x 3
  18. GeoTcgaData::kegg_liver
    a matrix of gene expression data in TCGA
    csv| json| rda| rds
    matrix|100 x 150
  19. GeoTcgaData::module
    a matrix of module name, gene symbols, and the number of gene symbols
    csv| json| rda| rds
    matrix|176 x 3
  20. GeoTcgaData::profile
    a matrix of gene expression data in TCGA
    csv| json| rda| rds
    matrix|9 x 9
  21. GeoTcgaData::ventricle
    a matrix of gene expression data in GEO
    csv| json| rda| rds
    matrix|32 x 20
  22. GOSemSim::gotbl
    Information content of GO terms
    csv| xlsx| json| ndjson| rda| rds
    data.frame|87439 x 5
  23. MicrobiomeProfiler::microbiota_taxlist
    Example data: a vector of 54 bacterial genera tested for significantly between T2D metformin samples
    json| rda| rds
    integer
  24. MicrobiomeProfiler::Psoriasis_data
    Example data: a vector of 134 significantly different functional COGs between Psoriasis patients and controls
    json| rda| rds
    character
  25. MicrobiomeProfiler::Rat_data
    Example data: a vector of 91 KEGG Orthologies (KOs) showing significant associations with weaning weight
    json| rda| rds
    character
  26. MicrobiotaProcess::kostic2012crc
    (Data) Genomic analysis identifies association of Fusobacterium with colorectal carcinoma (2012)
    rda| rds
    MPSE
  27. MicrobiotaProcess::mouse.time.mpse
    (Data) An example data
    rda| rds
    MPSE
  28. MicrobiotaProcess::test_otu_data
    (Data) simulated dataset.
    rda| rds
    MPSE
  29. MMINP::MMINP_trained_model
    (Data) A MMINP model
    rda| rds
    mminp
  30. MMINP::test_metab
    (Data) Normalized metabolite abundances for MMINP prediction
    csv| xlsx| json| ndjson| rda| rds
    data.frame|65 x 130
  31. MMINP::test_metag
    (Data) Normalized gene family abundances for MMINP prediction
    csv| xlsx| json| ndjson| rda| rds
    data.frame|65 x 629
  32. MMINP::train_metab
    (Data) Normalized metabolite abundances for MMINP training
    csv| xlsx| json| ndjson| rda| rds
    data.frame|155 x 135
  33. MMINP::train_metag
    (Data) Normalized gene family abundances for MMINP training
    csv| xlsx| json| ndjson| rda| rds
    data.frame|155 x 733
  34. SVP::CancerSEAEnsemble
    The Gene List of Cancer Single-cell State Atlas (CancerSEA)
    json| rda| rds
    list
  35. SVP::CancerSEASymbol
    The Gene List of Cancer Single-cell State Atlas (CancerSEA)
    json| rda| rds
    list
  36. SVP::CellCycle.Hs
    the Cell Cycle gene set
    json| rda| rds
    list
  37. SVP::hpda_spe_cell_dec
    an example of result of runSGSA by extracting with gsvaExp
    rda| rds
    SpatialExperiment
  38. SVP::sceSubPbmc
    a subset data of pbmck3 from SeuratData
    rda| rds
    SingleCellExperiment
  39. SVP::SenMayoSymbol
    A gene set identifies senescent cells and predicts senescence-associated pathways across tissues
    csv| json| rda| rds
    list
  40. TDbook::AA_sequence
    Data set containing multiple sequence alignment information
    rda| rds
    AAbin
  41. TDbook::df_alleles
    Allele table
    csv| xlsx| json| ndjson| rda| rds
    data.frame|386 x 385
  42. TDbook::df_alltax_info
    Data frame containing hierarchical relationship
    csv| xlsx| json| ndjson| rda| rds
    data.frame|1351 x 7
  43. TDbook::df_bar_data
    Trait data
    csv| xlsx| json| ndjson| rda| rds
    data.frame|386 x 2
  44. TDbook::df_barplot_attr
    Data set of the abundance of microbes at the body sites of greatest prevalence
    csv| xlsx| json| ndjson| rda| rds
    data.frame|332 x 3
  45. TDbook::df_Candidaauris_data
    Population genetics data No.1
    csv| xlsx| json| ndjson| rda| rds
    data.frame|305 x 20
  46. TDbook::df_difftax
    Data frame containing taxa and factor information and pvalue
    csv| xlsx| json| ndjson| rda| rds
    data.frame|36 x 3
  47. TDbook::df_info
    Sampling information data set
    csv| xlsx| json| ndjson| rda| rds
    data.frame|386 x 6
  48. TDbook::df_inode_data
    Nodedata to be mapped to tree
    csv| xlsx| json| ndjson| rda| rds
    data.frame|6 x 6
  49. TDbook::df_NJIDqgsS
    Population genetics data No.2
    csv| xlsx| json| ndjson| rda| rds
    data.frame|1832 x 12
  50. TDbook::df_ring_heatmap
    Data set of the abundance and types of microbes
    csv| xlsx| json| ndjson| rda| rds
    data.frame|2324 x 3
  51. TDbook::df_svl
    Data frame containing slv information
    csv| xlsx| json| ndjson| rda| rds
    data.frame|100 x 1
  52. TDbook::df_tip_data
    Tipdata to be mapped to tree
    csv| xlsx| json| ndjson| rda| rds
    data.frame|7 x 10
  53. TDbook::df_tippoint
    Data set of the abundance and types of microbes
    csv| xlsx| json| ndjson| rda| rds
    data.frame|332 x 4
  54. TDbook::dna_HPV58_aln
    A DNAbin class to store the aligned sequnces of species of HPV58.tree
    rda| rds
    DNAbin
  55. TDbook::text_RMI_tree
    Tree to display with symbolic points indicating partitioned bootstrap values
    json| rda| rds
    character
  56. TDbook::tree_anole
    Tree to color with continuous state transition in edges
    rda| rds
    phylo
  57. TDbook::tree_boots
    Tree to be mapped to data
    rda| rds
    phylo
  58. TDbook::tree_Candidaauris
    Tree No.1 to display with visualized population genetics data
    rda| rds
    phylo
  59. TDbook::tree_hmptree
    Tree to display with multiple graphs for multi-dimensional data
    rda| rds
    phylo
  60. TDbook::tree_HPV58
    Tree to display with dot and line plots of pairwise nucleotide sequence distances
    rda| rds
    phylo
  61. TDbook::tree_long_branch_example
    Tree to display with shrunk outlier long branch
    rda| rds
    phylo
  62. TDbook::tree_nex
    Tree to display with silhouettes from Phylopic
    rda| rds
    phylo
  63. TDbook::tree_NJIDqgsS
    Tree No.2 to display with visualized population genetics data
    rda| rds
    phylo
  64. TDbook::tree_nwk
    Tree to display with sampling information, SNP and Trait data
    rda| rds
    phylo
  65. TDbook::tree_seq_nwk
    Tree to display with multiple sequence alignment
    rda| rds
    phylo
  66. TDbook::tree_treenwk_30.4.19
    Tree to group and highlight
    rda| rds
    phylo