parallel.compute: Function to parallelize computation with various methods

Description Usage Arguments Value

View source: R/functions_for_RGWAS.R

Description

Function to parallelize computation with various methods

Usage

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parallel.compute(
  vec,
  func,
  n.core = 2,
  parallel.method = "mclapply",
  count = TRUE
)

Arguments

vec

Numeric vector including the values that are computed in parallel.

func

The function to be applied to each element of 'vec' argument. This function must only have one argument.

n.core

Setting n.core > 1 will enable parallel execution on a machine with multiple cores. This argument is not valid when 'parallel.method = "furrr"'.

parallel.method

Method for parallel computation. We offer three methods, "mclapply", "furrr", and "foreach".

When 'parallel.method = "mclapply"', we utilize pbmclapply function in the 'pbmcapply' package with 'count = TRUE' and mclapply function in the 'parallel' package with 'count = FALSE'.

When 'parallel.method = "furrr"', we utilize future_map function in the 'furrr' package. With 'count = TRUE', we also utilize progressor function in the 'progressr' package to show the progress bar, so please install the 'progressr' package from github (https://github.com/HenrikBengtsson/progressr). For 'parallel.method = "furrr"', you can perform multi-thread parallelization by sharing memories, which results in saving your memory, but quite slower compared to 'parallel.method = "mclapply"'.

When 'parallel.method = "foreach"', we utilize foreach function in the 'foreach' package with the utilization of makeCluster function in 'parallel' package, and registerDoParallel function in 'doParallel' package. With 'count = TRUE', we also utilize setTxtProgressBar and txtProgressBar functions in the 'utils' package to show the progress bar.

We recommend that you use the option 'parallel.method = "mclapply"', but for Windows users, this parallelization method is not supported. So, if you are Windows user, we recommend that you use the option 'parallel.method = "foreach"'.

count

When count is TRUE, you can know how far RGWAS has ended with percent display.

Value

List of the results for each element of 'vec' argument.


RAINBOWR documentation built on Jan. 7, 2022, 5:15 p.m.