Package: MatrixGenerics 1.19.0
Peter Hickey
MatrixGenerics: S4 Generic Summary Statistic Functions that Operate on Matrix-Like Objects
S4 generic functions modeled after the 'matrixStats' API for alternative matrix implementations. Packages with alternative matrix implementation can depend on this package and implement the generic functions that are defined here for a useful set of row and column summary statistics. Other package developers can import this package and handle a different matrix implementations without worrying about incompatibilities.
Authors:
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MatrixGenerics.pdf |MatrixGenerics.html✨
MatrixGenerics/json (API)
NEWS
| # Install 'MatrixGenerics' in R: |
| install.packages('MatrixGenerics', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/bioconductor/matrixgenerics/issues
On BioConductor:MatrixGenerics-1.19.0(bioc 3.21)MatrixGenerics-1.18.0(bioc 3.20)
infrastructuresoftwarebioconductor-packagecore-package
Last updated 19 days agofrom:dbb20c2336. Checks:OK: 1 NOTE: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 06 2024 |
| R-4.5-win | NOTE | Nov 06 2024 |
| R-4.5-linux | NOTE | Nov 06 2024 |
| R-4.4-win | NOTE | Nov 06 2024 |
| R-4.4-mac | NOTE | Nov 06 2024 |
| R-4.3-win | NOTE | Nov 06 2024 |
| R-4.3-mac | NOTE | Nov 06 2024 |
Exports:colAllscolAnyNAscolAnyscolAvgsPerRowSetcolCollapsecolCountscolCummaxscolCumminscolCumprodscolCumsumscolDiffscolIQRDiffscolIQRscolLogSumExpscolMadDiffscolMadscolMaxscolMeanscolMeans2colMedianscolMinscolOrderStatscolProdscolQuantilescolRangescolRankscolSdDiffscolSdscolSumscolSums2colTabulatescolVarDiffscolVarscolWeightedMadscolWeightedMeanscolWeightedMedianscolWeightedSdscolWeightedVarsnormarg_centerrowAllsrowAnyNAsrowAnysrowAvgsPerColSetrowCollapserowCountsrowCummaxsrowCumminsrowCumprodsrowCumsumsrowDiffsrowIQRDiffsrowIQRsrowLogSumExpsrowMadDiffsrowMadsrowMaxsrowMeansrowMeans2rowMediansrowMinsrowOrderStatsrowProdsrowQuantilesrowRangesrowRanksrowSdDiffsrowSdsrowSumsrowSums2rowTabulatesrowVarDiffsrowVarsrowWeightedMadsrowWeightedMeansrowWeightedMediansrowWeightedSdsrowWeightedVars
Dependencies:matrixStats
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| The MatrixGenerics package | MatrixGenerics-package class:matrix_OR_array_OR_table_OR_numeric matrix_OR_array_OR_table_OR_numeric matrix_OR_array_OR_table_OR_numeric-class |
| Check if all elements in a row (column) of a matrix-like object are equal to a value | colAlls colAlls,ANY-method colAlls,matrix_OR_array_OR_table_OR_numeric-method rowAlls rowAlls,ANY-method rowAlls,matrix_OR_array_OR_table_OR_numeric-method |
| Check if any elements in a row (column) of a matrix-like object is missing | colAnyNAs colAnyNAs,ANY-method colAnyNAs,matrix_OR_array_OR_table_OR_numeric-method rowAnyNAs rowAnyNAs,ANY-method rowAnyNAs,matrix_OR_array_OR_table_OR_numeric-method |
| Check if any elements in a row (column) of a matrix-like object is equal to a value | colAnys colAnys,ANY-method colAnys,matrix_OR_array_OR_table_OR_numeric-method rowAnys rowAnys,ANY-method rowAnys,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates for each row (column) a summary statistic for equally sized subsets of columns (rows) | colAvgsPerRowSet colAvgsPerRowSet,ANY-method colAvgsPerRowSet,matrix_OR_array_OR_table_OR_numeric-method rowAvgsPerColSet rowAvgsPerColSet,ANY-method rowAvgsPerColSet,matrix_OR_array_OR_table_OR_numeric-method |
| Extract one cell from each row (column) of a matrix-like object | colCollapse colCollapse,ANY-method colCollapse,matrix_OR_array_OR_table_OR_numeric-method rowCollapse rowCollapse,ANY-method rowCollapse,matrix_OR_array_OR_table_OR_numeric-method |
| Count how often an element in a row (column) of a matrix-like object is equal to a value | colCounts colCounts,ANY-method colCounts,matrix_OR_array_OR_table_OR_numeric-method rowCounts rowCounts,ANY-method rowCounts,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the cumulative maxima for each row (column) of a matrix-like object | colCummaxs colCummaxs,ANY-method colCummaxs,matrix_OR_array_OR_table_OR_numeric-method rowCummaxs rowCummaxs,ANY-method rowCummaxs,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the cumulative minima for each row (column) of a matrix-like object | colCummins colCummins,ANY-method colCummins,matrix_OR_array_OR_table_OR_numeric-method rowCummins rowCummins,ANY-method rowCummins,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the cumulative product for each row (column) of a matrix-like object | colCumprods colCumprods,ANY-method colCumprods,matrix_OR_array_OR_table_OR_numeric-method rowCumprods rowCumprods,ANY-method rowCumprods,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the cumulative sum for each row (column) of a matrix-like object | colCumsums colCumsums,ANY-method colCumsums,matrix_OR_array_OR_table_OR_numeric-method rowCumsums rowCumsums,ANY-method rowCumsums,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the difference between each element of a row (column) of a matrix-like object | colDiffs colDiffs,ANY-method colDiffs,matrix_OR_array_OR_table_OR_numeric-method rowDiffs rowDiffs,ANY-method rowDiffs,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the interquartile range of the difference between each element of a row (column) of a matrix-like object | colIQRDiffs colIQRDiffs,ANY-method colIQRDiffs,matrix_OR_array_OR_table_OR_numeric-method rowIQRDiffs rowIQRDiffs,ANY-method rowIQRDiffs,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the interquartile range for each row (column) of a matrix-like object | colIQRs colIQRs,ANY-method colIQRs,matrix_OR_array_OR_table_OR_numeric-method rowIQRs rowIQRs,ANY-method rowIQRs,matrix_OR_array_OR_table_OR_numeric-method |
| Accurately calculates the logarithm of the sum of exponentials for each row (column) of a matrix-like object | colLogSumExps colLogSumExps,ANY-method colLogSumExps,matrix_OR_array_OR_table_OR_numeric-method rowLogSumExps rowLogSumExps,ANY-method rowLogSumExps,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the mean absolute deviation of the difference between each element of a row (column) of a matrix-like object | colMadDiffs colMadDiffs,ANY-method colMadDiffs,matrix_OR_array_OR_table_OR_numeric-method rowMadDiffs rowMadDiffs,ANY-method rowMadDiffs,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the median absolute deviation for each row (column) of a matrix-like object | colMads colMads,ANY-method colMads,matrix_OR_array_OR_table_OR_numeric-method rowMads rowMads,ANY-method rowMads,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the maximum for each row (column) of a matrix-like object | colMaxs colMaxs,ANY-method colMaxs,matrix_OR_array_OR_table_OR_numeric-method rowMaxs rowMaxs,ANY-method rowMaxs,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the mean for each row (column) of a matrix-like object | colMeans rowMeans |
| Calculates the mean for each row (column) of a matrix-like object | colMeans2 colMeans2,ANY-method colMeans2,matrix_OR_array_OR_table_OR_numeric-method rowMeans2 rowMeans2,ANY-method rowMeans2,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the median for each row (column) of a matrix-like object | colMedians colMedians,ANY-method colMedians,matrix_OR_array_OR_table_OR_numeric-method rowMedians rowMedians,ANY-method rowMedians,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the minimum for each row (column) of a matrix-like object | colMins colMins,ANY-method colMins,matrix_OR_array_OR_table_OR_numeric-method rowMins rowMins,ANY-method rowMins,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates an order statistic for each row (column) of a matrix-like object | colOrderStats colOrderStats,ANY-method colOrderStats,matrix_OR_array_OR_table_OR_numeric-method rowOrderStats rowOrderStats,ANY-method rowOrderStats,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the product for each row (column) of a matrix-like object | colProds colProds,ANY-method colProds,matrix_OR_array_OR_table_OR_numeric-method rowProds rowProds,ANY-method rowProds,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates quantiles for each row (column) of a matrix-like object | colQuantiles colQuantiles,ANY-method colQuantiles,matrix_OR_array_OR_table_OR_numeric-method rowQuantiles rowQuantiles,ANY-method rowQuantiles,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the minimum and maximum for each row (column) of a matrix-like object | colRanges colRanges,ANY-method colRanges,matrix_OR_array_OR_table_OR_numeric-method rowRanges rowRanges,ANY-method rowRanges,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the rank of the elements for each row (column) of a matrix-like object | colRanks colRanks,ANY-method colRanks,matrix_OR_array_OR_table_OR_numeric-method rowRanks rowRanks,ANY-method rowRanks,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the standard deviation of the difference between each element of a row (column) of a matrix-like object | colSdDiffs colSdDiffs,ANY-method colSdDiffs,matrix_OR_array_OR_table_OR_numeric-method rowSdDiffs rowSdDiffs,ANY-method rowSdDiffs,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the standard deviation for each row (column) of a matrix-like object | colSds colSds,ANY-method colSds,matrix_OR_array_OR_table_OR_numeric-method rowSds rowSds,ANY-method rowSds,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the sum for each row (column) of a matrix-like object | colSums rowSums |
| Calculates the sum for each row (column) of a matrix-like object | colSums2 colSums2,ANY-method colSums2,matrix_OR_array_OR_table_OR_numeric-method rowSums2 rowSums2,ANY-method rowSums2,matrix_OR_array_OR_table_OR_numeric-method |
| Tabulates the values in a matrix-like object by row (column) | colTabulates colTabulates,ANY-method colTabulates,matrix_OR_array_OR_table_OR_numeric-method rowTabulates rowTabulates,ANY-method rowTabulates,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the variance of the difference between each element of a row (column) of a matrix-like object | colVarDiffs colVarDiffs,ANY-method colVarDiffs,matrix_OR_array_OR_table_OR_numeric-method rowVarDiffs rowVarDiffs,ANY-method rowVarDiffs,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the variance for each row (column) of a matrix-like object | colVars colVars,ANY-method colVars,matrix_OR_array_OR_table_OR_numeric-method rowVars rowVars,ANY-method rowVars,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the weighted median absolute deviation for each row (column) of a matrix-like object | colWeightedMads colWeightedMads,ANY-method colWeightedMads,matrix_OR_array_OR_table_OR_numeric-method rowWeightedMads rowWeightedMads,ANY-method rowWeightedMads,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the weighted mean for each row (column) of a matrix-like object | colWeightedMeans colWeightedMeans,ANY-method colWeightedMeans,matrix_OR_array_OR_table_OR_numeric-method rowWeightedMeans rowWeightedMeans,ANY-method rowWeightedMeans,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the weighted median for each row (column) of a matrix-like object | colWeightedMedians colWeightedMedians,ANY-method colWeightedMedians,matrix_OR_array_OR_table_OR_numeric-method rowWeightedMedians rowWeightedMedians,ANY-method rowWeightedMedians,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the weighted standard deviation for each row (column) of a matrix-like object | colWeightedSds colWeightedSds,ANY-method colWeightedSds,matrix_OR_array_OR_table_OR_numeric-method rowWeightedSds rowWeightedSds,ANY-method rowWeightedSds,matrix_OR_array_OR_table_OR_numeric-method |
| Calculates the weighted variance for each row (column) of a matrix-like object | colWeightedVars colWeightedVars,ANY-method colWeightedVars,matrix_OR_array_OR_table_OR_numeric-method rowWeightedVars rowWeightedVars,ANY-method rowWeightedVars,matrix_OR_array_OR_table_OR_numeric-method |
