This command enables
subsetting to a list of cells
converting between file formats
merging shards
dividing shards
Usage
BascetMapTransform(
bascetRoot,
inputName,
outputName,
numDivide = 1,
numMerge = 1,
outFormat = "tirp.gz",
includeCells = NULL,
numThreads = NULL,
totalMem = NULL,
overwrite = FALSE,
runner = GetDefaultBascetRunner(),
bascetInstance = GetDefaultBascetInstance()
)Arguments
- bascetRoot
The root folder where all Bascets are stored
- inputName
Name of input shard
- outputName
Name of output shard
- numDivide
Must be >=1; if more than 1, divide each input shard into number of outputs given here
- numMerge
Must be >=1; if more than 1, merge this number of input shards into one
- outFormat
Extension for the output files
- includeCells
List of cells to include, or NULL if to include all
- numThreads
Number of threads to use. Default is the maximum, taken from runner settings
- totalMem
Total memory to allocate
- overwrite
Force overwriting of existing files. The default is to do nothing files exist
- runner
The job manager, specifying how the command will be run (e.g. locally, or via SLURM)
- bascetInstance
A Bascet instance