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  1. 1.
    goSorensen::allContTabs
    Example of the output produced by the function 'allBuildEnrichTable'.
    rda| rds
    allTableList
  2. 2.
    goSorensen::allContTabsNoLevel
    Example of the output produced by the function 'allBuildEnrichTable'.
    rda| rds
    allTableList
  3. 3.
    goSorensen::allDissMatrx
    Example of the output produced by the function 'allSorenThreshold'. It contains the dissimilarity matrices for GO levels from 3 to 10 across the ontologies BP, CC and MF.
    csv| rda| rds
    distList
  4. 4.
    goSorensen::allDissMatrxNoLevel
    Example of the output produced by the function 'allSorenThreshold'. It contains the dissimilarity matrices without GO-Level restriction across the ontologies BP, CC and MF.
    csv| rda| rds
    distList
  5. 5.
    goSorensen::allEqTests
    Example of the output produced by the function 'allEquivTestSorensen' using the normal asymptotic distribution.
    rda| rds
    AllEquivSDhtest
  6. 6.
    goSorensen::allEqTests_boot
    Example of the output produced by the function 'allEquivTestSorensen' using the approximated bootstrap distribution.
    rda| rds
    AllEquivSDhtest
  7. 7.
    goSorensen::allEqTests_bootNoLevel
    Example of the output produced by the function 'allEquivTestSorensen' using the approximated bootstrap distribution.
    rda| rds
    AllEquivSDhtest
  8. 8.
    goSorensen::allEqTestsNoLevel
    Example of the output produced by the function 'allEquivTestSorensen' using the normal asymptotic distribution.
    rda| rds
    AllEquivSDhtest
  9. 9.
    goSorensen::allOncoGeneLists
    7 gene lists possibly related with cancer
    json| rda| rds
    list
  10. 10.
    goSorensen::cont_all_BP
    Example of the output produced by the function 'buildEnrichTable'. It contains the enrichment contingency tables for all the lists from 'allOncoGeneLists' for ontology BP without GO-Level restriction.
    rda| rds
    tableList
  11. 11.
    goSorensen::cont_all_BP4
    Example of the output produced by the function 'buildEnrichTable'. It contains the enrichment contingency tables for all the lists from 'allOncoGeneLists' at level 4 of ontology BP.
    rda| rds
    tableList
  12. 12.
    goSorensen::cont_atlas.sanger_BP
    Example of the output produced by the function 'buildEnrichTable'. It contains the enrichment contingency table for two lists for ontology BP without GO-Level restriction.
    csv| rda| rds
    table|2 x 2
  13. 13.
    goSorensen::cont_atlas.sanger_BP4
    Example of the output produced by the function 'buildEnrichTable'. It contains the enrichment contingency table for two lists at level 4 of ontology BP.
    csv| rda| rds
    table|2 x 2
  14. 14.
    goSorensen::dissMatrx_BP
    Example of the output produced by the function 'sorenThreshold'. It contains the dissimilarity matrix for the ontology BP without GO-Level restriction.
    rda| rds
    dist
  15. 15.
    goSorensen::dissMatrx_BP4
    Example of the output produced by the function 'sorenThreshold'. It contains the dissimilarity matrix at GO level 4, for the ontology BP.
    rda| rds
    dist
  16. 16.
    goSorensen::enrichedInBP
    Example of the output produced by the function 'enrichedIn'. It contains exclusively GO terms enriched in at least one list of 'allOncoGeneLists', ontology BP, without GO-Level restriction.
    csv| json| rda| rds
    matrix|2695 x 7
  17. 17.
    goSorensen::enrichedInBP4
    Example of the output produced by the function 'enrichedIn'. It contains exclusively GO terms enriched in at least one list of 'allOncoGeneLists', ontology BP, GO-Level 4.
    csv| json| rda| rds
    matrix|346 x 7
  18. 18.
    goSorensen::eqTest_all_BP
    Example of the output produced by the function 'equivTestSorensen'. It contains all the possible equivalence tests for the lists from 'allOncoGeneLists' in ontology BP without GO-Level restriction.
    rda| rds
    equivSDhtestList
  19. 19.
    goSorensen::eqTest_all_BP4
    Example of the output produced by the function 'equivTestSorensen'. It contains all the possible equivalence tests for the lists from 'allOncoGeneLists' at level 4 of ontology BP.
    rda| rds
    equivSDhtestList
  20. 20.
    goSorensen::eqTest_atlas.sanger_BP
    Example of the output produced by the function 'equivTestSorensen'. It contains the equivalence test for comparing two lists in ontology BP without GO-Level restriction.
    rda| rds
    equivSDhtest
  21. 21.
    goSorensen::eqTest_atlas.sanger_BP4
    Example of the output produced by the function 'equivTestSorensen'. It contains the equivalence test for comparing two lists at level 4 of ontology BP.
    rda| rds
    equivSDhtest
  22. 22.
    goSorensen::fullEnrichedInBP
    Example of the output produced by the function 'enrichedIn'. It contains all the GO terms enriched or not-enriched in the lists of 'allOncoGeneLists', ontology BP, without GO-Level restriction.
    csv| json| rda| rds
    matrix|5880 x 7
  23. 23.
    goSorensen::fullEnrichedInBP4
    Example of the output produced by the function 'enrichedIn'. It contains all the GO terms enriched or not-enriched in the lists of 'allOncoGeneLists', ontology BP, GO-Level 4.
    csv| json| rda| rds
    matrix|3323 x 7
  24. 24.
    goSorensen::pbtGeneLists
    14 gene lists possibly related with kidney transplant rejection
    json| rda| rds
    list