A probabilistic algorithm for matching and comparing multiple flow cytometry samples


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Documentation for package ‘flowMap’ version 1.4.0

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flowMatch-package Flow cytometry data cross-sample comparison
crossMap-class Statistics of mapping the test samples and the reference sample (or the proxy reference)
FRmapping Multiple sample comparison with a user-defined reference
FRmappingSimple Multiple sample comparisons
FRstats-class FR statistics and p-values generated from one single draw of the population pair comparison
FRvalsPerm-class Statistics generated from the permuted distribution of the observed FR statistics
getCrossList Statistics of mapping the test samples and the reference sample (or the proxy reference)
getCrossList-method Statistics of mapping the test samples and the reference sample (or the proxy reference)
getFR F-R test for one population comparison
getFRest F-R statistic estimates across two samples
getFRmapPnorms Statistics of mapping the test samples and the reference sample (or the proxy reference)
getFRmapPnorms-method Statistics of mapping the test samples and the reference sample (or the proxy reference)
getFRmapPnulls Statistics of mapping the test samples and the reference sample (or the proxy reference)
getFRmapPnulls-method Statistics of mapping the test samples and the reference sample (or the proxy reference)
getFRmapStats Statistics of mapping the test samples and the reference sample (or the proxy reference)
getFRmapStats-method Statistics of mapping the test samples and the reference sample (or the proxy reference)
getFRmat F-R tests for two-sampbetween two samples
getFRstats FR statistics and p-values generated from one single draw of the population pair comparison
getFRstats-method FR statistics and p-values generated from one single draw of the population pair comparison
getFRvalsPerm Compute statistics for the empirical distribution
getMatched Identify matched population pairs
getMatchMat Matching information about a single cross-sample comparison
getMatchMat-method Matching information about a single cross-sample comparison
getMatchPairs Matching information about a single cross-sample comparison
getMatchPairs-method Matching information about a single cross-sample comparison
getNewPops Data and summary information of the proxy reference sample
getNewPops-method Data and summary information of the proxy reference sample
getPairList Information required to making a proxy reference sample
getPairList-method Information required to making a proxy reference sample
getPnorm FR statistics and p-values generated from one single draw of the population pair comparison
getPnorm-method FR statistics and p-values generated from one single draw of the population pair comparison
getPnulls Statistics generated from the permuted distribution of the observed FR statistics
getPnulls-method Statistics generated from the permuted distribution of the observed FR statistics
getPopFilt List of population pairs to be compared during multiple-sample comparisons
getPopFilt-method List of population pairs to be compared during multiple-sample comparisons
getRefData Data and summary information of the proxy reference sample
getRefData-method Data and summary information of the proxy reference sample
getSampleInfo List of directories and sample files
getSampleInfo-method List of directories and sample files
getSomePops Make prefiltering matrix for each test sample
getWnulls Statistics generated from the permuted distribution of the observed FR statistics
getWnulls-method Statistics generated from the permuted distribution of the observed FR statistics
makeCrossMap Make mapping information for the meta set of populations
makeRefMap Make mapping information for the proxy reference sample
makeRefSample Make a proxy reference sample
makeSampleInfo Prepare background files to downstream data processing
matchMat-class Matching information about a single cross-sample comparison
permutePops Permute cell population labels across two samples
refMap-class Information required to making a proxy reference sample
refSample-class Data and summary information of the proxy reference sample
SampleInfo-class List of directories and sample files
somePops-class List of population pairs to be compared during multiple-sample comparisons
statCrossLists summary statistic across elements of lists