Man pages for barkasn/nbHelpers
Various Useful Helper Functions
| deseqRes2Tibble | Convert DESeq2 results table into a tibble |
| factor2Char | Convert a factor to a character vector, while preserving the... |
| factorBreakdown | Break down a factor returning the names of the elements in... |
| factorBreakdown.2 | Break down a factor returning the names of the elements in... |
| getDataWithCovarianceMatrix | Generates data with covariance structure specified by the... |
| getDisplay | Get the display paramters for X11 plotting |
| getFactorFromP1rds | Get the colors of a pagoda1 serialised app object as a factor |
| getNamedDirectoryListing | Like list.files but return the full path and the vector... |
| getParMfrow | get number of rows and cols to use when printing a n.items... |
| getSlurmCpus | Get the number of processors allocated to the current job by... |
| headtail | Head and tail of a table combined |
| is.error | Return TRUE if the parameter is an error object |
| ll2a | Convert list of lists of numbers to array |
| load.hca.matrix | Load a sparse matrix from an HDF5 file ensuring that the... |
| mergeFactor | Merge a previously broken down factor |
| mergeMatrices | Merge expression matrices in a list, keeping only common... |
| minStringDistance | Find minimum string distance strings in a vector |
| mixCellsInMatrix | mix cells in a matrix with a common background profile... |
| mixVectorsOnLogical | Generates a new vector from two vectors by combining them... |
| NA2FALSE | Convert NA values in x to FALSE |
| NA2VALUE | Convert NA values in x to the value specified by val |
| namedLevels | Get a vector with the levels of a factor named with their own... |
| namedNames | Get a vector of the names of an object named by the names... |
| nbHelpers | nbHelpers |
| plapply | Parallel apply using the packages parallel, BiocParallel or... |
| plotFactorsPercent | Generate a ggplot2 plot comparing two factors for a common... |
| randomPositiveDefiniteMatrix | Generates a random positive definite matrix |
| read10Xmatrices | read multiple 10x matrices into a single sparse array |
| read10xMatrix | Read 10x matrix |
| readInDropMatrix | Reads in a data matrix from the in house indrop pipeline |
| readKleinMatrix | Reads in an expression matrix as formatted by the Klein lab... |
| readMultiple10XmatricesAsList | read multiple 10x matrices and return as a list |
| readMultipleInDropMatrices | Reads in multiple indrop matrices |
| readMultipleKleinMatrices | Reads in multiple klein matrices and returns them in a list |
| removeLevelsBySize | Remove levels and elements from a factor that have fewer than... |
| removeLevelsFromFactor | Remove all elements from specificed clusters from a factor... |
| replaceClusterFactors | Combine two named factors when the new factor contains a... |
| rldpkg | Reload a package from the library |
| setDisplay | Set the display parameter for X11 plotting |
| sparseMatrixDensity | Get the percent of entries that are filled in a sparse matrix |
| str1 | Get the top level structure of an object |
| str2 | Get the two top levels of structure of an object |
| strpart | Get the specified substring of string delimited by a... |
| subSampleCountMatrix | Subsample a count matrix to a specific number of reads |
| subSampleCountMatrix2 | Subsample a count matrix to a specific number of reads,... |
| symmsetdiff | Get the symmetrical set difference between two sets (XOR) |
| tableCorners | get NW, NE, SW and SE corners of a dataframe or matrix |
| transpose_dgRMatrix | Transpose a dgRMatrix and simultaneously convert it to... |
| uniqCombs | Get all unique combinations of elements in a list |
| vectorSeqOverlap | Get the number of commong elements among the top n elements... |
| vennCounts | Given two vectors return the number of elements only in a, in... |
| writeListOfDFs | Write a list of data.frames as individual csv files |
