applyZMWs: Apply Function to ZMWs

In PacificBiosciences/R-pbh5: Interface to Pacific Biosciences HDF5 Files

Description

Apply a function across ZMWs of a trace file. This function performs computation in blocks to avoid inevitable memory issues associated with the typical size of trc.h5 files.

Usage

   applyZMWs(trcH5, fx, ..., .whichZMWs = NULL, .blockSize = 100)

Arguments

trcH5	An object of class trc.h5
fx	A function to apply to the channel by frame matrix.
...	Extra arguments to fx
.whichZMWs	To which ZMWs should the function be applied.
.blockSize	Tuning parameter for adjusting the number of ZMWs that are brought into memory at any one time.

Details

This function is only mildly supported. The prospect of performing large scale computations on trc.h5 files in R is daunting.

Value

A list with the results of each application of fx

See Also

PacBioTrcH5-class

PacificBiosciences/R-pbh5 documentation built on May 7, 2019, 11:54 p.m.