aggregate: Aggregate billions of data points into a...

In mklarqvist/rtomahawk: Tools for computing, querying and storing linkage-disequilibrium data

Description

Some additional details about this S4 generic and its methods. The extra blank line between this section and the title is critical for roxygen2 to differentiate the title from the description section.

Usage

aggregate(x = "twk", aggregation = "character",
  reduction = "character", xbins = "numeric", ybins = "numeric",
  minCount = "numeric", threads = "numeric", verbose = "logical",
  progress = "logical", ...)

Arguments

x	Input twk class holding the target path.
aggregation	String representing the aggregation function to use on the input data.
reduction	String representing the reduction function to use after after data has been aggregated.
xbins	Number of bins (pixels) in the x-dimension.
ybins	Number of bins (pixels) in the y-dimension.
minCount	Only pixels with at least this many observations are reported.
threads	Number of aggregation/reduction threads to use.
verbose	Flag triggering verbose output (written to std::cerr). This will usually, but not always, be appropriately handled by R.
progress	This flag will trigger a detached thread internal to Tomahawk that will tick progression every 30 seconds to the console. Note that R NEVER cleans up this thread and it will tick until the R instance is closed.

Value

Returns a twk_agg object with the aggregated matrix.

Author(s)

Marcus D. R. Klarqvist <[e-mail]> | <https://mdrk.me>

See Also

twk_data, twk_header, twk_filter, and twk

Examples

# Assuming you have a file called "test.two" in your downloads directory.
twk<-openTomahawkOutput("~/Downloads/test.two")
agg <- aggregateOutput(twk, "r2" ,"count", 1000, 1000, 50, verbose = T, threads = 4)
plot(agg, normalize = TRUE)
plot(agg, normalize = FALSE)
agg

mklarqvist/rtomahawk documentation built on May 16, 2019, 5:01 a.m.