GetIM: Whole Image Query

Description Usage Arguments Value Author(s) Examples

View source: R/GetIM.R

Description

Return the combined image of given plate location

Usage

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GetIM(SERVER = "MDCStore", ID = "moldev", PWD = "moldev", PlateID,
  WellID, SiteID = c(1, 1), Z = 1, Range = lapply(1:3, function(x)
  c(0, 0.1)), use.autoRange = T, col.order = c("blue", "green", "red"),
  channel.choice = 1:3, disp = "raster", TimeCourse = F,
  TimePoint = 1, resize = F, dim.resize = 600, returnMat = F, ...)

Arguments

SERVER

the odbc connexion to MDCStore database. Ignored if DB given

ID

the identifiant for connexion. Ignored if DB given

PWD

the password for connexion. Ignored if DB given

PlateID

the PlateID of the image

WellID

the WellID of the image

SiteID

the SiteID of the image

Z

The Z position of the image. Default is 1, value if no stacks is recorded. 0 for max projection, if recorded

Range

a list containing range values dor each channel image normalization (see normalize from EBImage)

col.order

the order of colours to be applied when combining channels

channel.choice

channel selection (3 maximum)

disp

'raster' or 'browser'. Where should be the image plotted. See display from EBImage package

TimeCourse

does the image come from timecourse experiment ?

TimePoint

the timepoint of the image. Ignored if TimeCourse=FALSE

resize

shall the returned image be resized ?

dim.resize

the size of resized image. Ignored if resize=FALSE

returnMat

shall image matrix be returned instead of dispayed ?

Value

a raster image or EBImage::Image class element

Author(s)

Allan Sauvat, [email protected]

Examples

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#Not running
GetIM(SERVER='YODA-SERVER', PlateID=1,WellID='E05',SiteID=c(2,2),disp='raster')

Ahlallan/MetaxpR documentation built on Feb. 12, 2019, 11:05 a.m.