CASMAP
Detection of Statistically Significant Combinations of SNPs in Association Mapping

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CASMAP: Detection of Statistically Significant Combinations of SNPs in Association Mapping
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Man pages for CASMAP
Detection of Statistically Significant Combinations of SNPs in Association Mapping

CASMAP-classConstructor for CASMAP class object.
CASMAPenvGlobal variables environment
checkIsBooleanCheck if a variable is boolean or not
getExampleCovariatesFilenameGet the path to the example covariates file for regionGWAS...
getExampleDataFilenameGet the path to the example data file for regionGWAS mode
getExampleLabelsFilenameGet the path to the example labels file for regionGWAS mode
getExampleSignificantRegionsFilenameGet the path to the example significant intervals file
getHigherOrderEpistasisStringGets the higherOrderEpistasis string
getMinModeLengthGets the minModeLength
getParentFunctionNameGet the function name
getRegionGWASStringGets the regionGWAS string
isHigherOrderEpistasisStringChecks if substring is part of higherOrderEpistasis
isInOpenIntervalA method to check value is numeric and in open interval
isRegionGWASStringChecks if substring is part of regionGWAS
lib_delete_search_chiInternal function
lib_delete_search_eInternal function
lib_delete_search_facsInternal function
lib_delete_search_fastcmhInternal function
lib_execute_intInternal function
lib_execute_isetInternal function
lib_filter_intervals_write_to_fileInternal function
lib_get_filtered_intervalsInternal function
lib_get_result_facsInternal function
lib_get_result_faisInternal function
lib_get_result_intInternal function
lib_get_result_isetInternal function
lib_get_significant_intervalsInternal function
lib_get_significant_itemsetsInternal function
lib_new_search_chiInternal function
lib_new_search_eInternal function
lib_new_search_facsInternal function
lib_new_search_fastcmhInternal function
lib_profiler_write_to_fileInternal function
lib_pvals_significant_ints_write_to_fileInternal function
lib_pvals_significant_isets_write_to_fileInternal function
lib_pvals_testable_ints_write_to_fileInternal function
lib_pvals_testable_isets_write_to_fileInternal function
lib_read_covariates_file_facsInternal function
lib_read_covariates_file_fastcmhInternal function
lib_read_eth_filesInternal function
lib_read_eth_files_with_cov_facsInternal function
lib_read_eth_files_with_cov_fastcmhInternal function
lib_read_plink_filesInternal function
lib_read_plink_files_with_cov_facsInternal function
lib_read_plink_files_with_cov_fastcmhInternal function
lib_summary_write_to_file_facsInternal function
lib_summary_write_to_file_faisInternal function
lib_summary_write_to_file_fastcmhInternal function
lib_write_eth_files_intInternal function
lib_write_eth_files_isetInternal function
lib_write_eth_files_with_cov_facsInternal function
lib_write_eth_files_with_cov_fastcmhInternal function
modeErrorMessageError message for mode
modeLengthErrorMessageError message for mode, if too short
modeNeedsMoreCharsChecks mode string is long enough
m_SignificantFeaturesSearch-classInternal class
m_SignificantFeaturesSearchWithCovariates-classInternal class
m_SignificantIntervalSearch-classInternal class
m_SignificantIntervalSearchFais-classInternal class
m_SignificantItemsetSearch-classInternal class
SignificantIntervalSearchChi-classApproximate fast significant interval search
SignificantIntervalSearchExact-classInternal class for search for significant regions
SignificantIntervalSearchFastCmh-classFast significant interval search with categorical covariates
SignificantItemsetSearchFacs-classSignificant itemsets search with categorical covariates
CASMAP documentation built on July 1, 2020, 7:16 p.m.

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