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  1. atSNP::encode_motif
    A motif library containing 2065 motifs downloaded from http://compbio.mit.edu/encode-motifs/motifs.txt.
    json| rda| rds
    list
  2. atSNP::encode_motifinfo
    The information for the motif library downloaded from http://compbio.mit.edu/encode-motifs/motifs.txt.
    json| rda| rds
    character
  3. atSNP::jaspar_motif
    A motif library containing 593 motifs downloaded from http://jaspar.genereg.net/html/DOWNLOAD/JASPAR_CORE/pfm/nonredundant/pfm_all .txt.
    json| rda| rds
    list
  4. atSNP::jaspar_motifinfo
    The information for the motif library downloaded from http://jaspar.genereg.net/html/DOWNLOAD/JASPAR_CORE/pfm/nonredundant/pfm_all .txt.
    json| rda| rds
    character
  5. atSNP::motif_library
    A sample motif library.
    csv| json| rda| rds
    list
  6. atSNP::motif_match
    Composit logo plotting input containing motif scores, the matching subsequences and the augmented matching subsequences on SNP and reference allele
    csv| xlsx| json| ndjson| rda| rds
    data.frame|1 x 35
  7. atSNP::motif_scores
    Scores for the sample snp data computed based on the motif data.
    json| rda| rds
    list
  8. atSNP::prior
    Default stationary distribution for nucleotide sequences in the reference genome.
    json| rda| rds
    numeric
  9. atSNP::snp_tbl
    A data frame for SNP information.
    csv| xlsx| json| ndjson| rda| rds
    data.frame|2 x 5
  10. atSNP::snpInfo
    A data set for SNP information.
    json| rda| rds
    list
  11. atSNP::transition
    Default transition probability matrix for nucleotide sequences in the reference genome.
    csv| json| rda| rds
    matrix|4 x 4