getChannel: returns the channel with more than one peak present. It...
In fomotis/cyanoFilter: Phytoplankton Population Identification using Cell Pigmentation and/or Complexity
Description
Usage
Arguments
Value
Description
returns the channel with more than one peak present.
It returns NA if there is only one peak present.
Usage
1
getChannel(flowfile, ch, ph)
Arguments
flowfile
flowframe after debris are removed.
ch
channel to be checked for multiple peaks.
ph
maximum peak height to be ignored. This allows
ignoring of tiny peaks that could
affect the gating process.
Value
name of channel with more than one peak
@examples
flowfile_path <- system.file("extdata", "B4_18_1.fcs",
package = "cyanoFilter",
mustWork = TRUE)
flowfile <- flowCore::read.FCS(flowfile_path, alter.names = TRUE,
transformation = FALSE,
emptyValue = FALSE,
dataset = 1)
flowfile_nona <- cyanoFilter::noNA(x = flowfile)
flowfile_noneg <- cyanoFilter::noNeg(x = flowfile_nona)
flowfile_logtrans <- cyanoFilter::lnTrans(x = flowfile_noneg,
c('SSC.W', 'TIME'))
getChannel(flowfile_logtrans, 'RED.B.HLin', 0.05)
fomotis/cyanoFilter documentation built on Aug. 1, 2021, 10:58 p.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Description Usage Arguments Value
Description
returns the channel with more than one peak present. It returns NA if there is only one peak present.
Usage
1 | getChannel(flowfile, ch, ph)
|
Arguments
flowfile |
flowframe after debris are removed. |
ch |
channel to be checked for multiple peaks. |
ph |
maximum peak height to be ignored. This allows ignoring of tiny peaks that could affect the gating process. |
Value
name of channel with more than one peak
@examples flowfile_path <- system.file("extdata", "B4_18_1.fcs", package = "cyanoFilter", mustWork = TRUE) flowfile <- flowCore::read.FCS(flowfile_path, alter.names = TRUE, transformation = FALSE, emptyValue = FALSE, dataset = 1) flowfile_nona <- cyanoFilter::noNA(x = flowfile) flowfile_noneg <- cyanoFilter::noNeg(x = flowfile_nona) flowfile_logtrans <- cyanoFilter::lnTrans(x = flowfile_noneg, c('SSC.W', 'TIME')) getChannel(flowfile_logtrans, 'RED.B.HLin', 0.05)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.