addTileMatrix | R Documentation |
This function, for each sample, will independently compute counts for each tile
addTileMatrix(
input = NULL,
chromSizes = if (inherits(input, "ArchRProject")) getChromSizes(input) else NULL,
blacklist = if (inherits(input, "ArchRProject")) getBlacklist(input) else NULL,
tileSize = 500,
binarize = TRUE,
excludeChr = c("chrM", "chrY"),
threads = getArchRThreads(),
parallelParam = NULL,
force = FALSE,
logFile = createLogFile("addTileMatrix")
)
input |
An |
chromSizes |
A named numeric vector containing the chromsome names and lengths. The default behavior is to retrieve
this from the |
blacklist |
A |
tileSize |
The size of the tiles used for binning counts in the "TileMatrix". |
binarize |
A boolean value indicating whether the "TileMatrix" should be binarized prior to storage. |
excludeChr |
A character vector containing the |
threads |
The number of threads to be used for parallel computing. |
parallelParam |
A list of parameters to be passed for biocparallel/batchtools parallel computing. |
force |
A boolean value indicating whether to force the "TileMatrix' to be overwritten if it already exist in the given |
logFile |
The path to a file to be used for logging ArchR output. |
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