draw_TICmap: Draw TIC map

Description Usage Arguments Value Examples

View source: R/draw_TICmap.R

Description

Based on the measures preprocessed by the function precook_measures(), the function draw_TICmap() pretends to draw the TIC chromatogram of diferent samples

Usage

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draw_TICmap(cdf_folder, samplestodraw_TIC = NA, samplestodraw_altTIC = NA,
  samplestodraw_LOGTIC = NA, samplestodraw_LOGaltTIC = NA, colors,
  sharerange = FALSE)

Arguments

cdf_folder

directory containing the precooked measures (files preckd_measures.rda and preckd_variables.rda). Presumabily should be the same directory where the original measures are (ncdf4 files). E.g. cdf_folder="C:/esborrar_mesuresGcxGc/mesures_Berkely_Noelia"

samplestodraw_TIC

list of samples whose TIC chromatogram needs to be drawed. The samples should be referred by their file position on a alphabetical ordered file list. Moreover, it can be drawed the result of adding or substracting a combination of samples; that operation should be indicated with a vector of samples, indicating with a minus the sample that should be substracted. e.g. samplestodraw_TIC=list(1,2,c(1,-3)) draws the TIC of the 1st and second sample, as well as the result of substract the 3rd's TIC sample from the 1st

samplestodraw_altTIC

analogously to the previous argument, list of samples whose "altered" TIC chromatogram needs to be drawed. "Altered" TIC is refered to a TIC without specific masses (see precook_measures() function). See the samplestodraw_TIC argument for further details.

samplestodraw_LOGTIC

list of samples whose log(TIC) chromatogram needs to be drawed. e.g. samplestodraw_LOGTIC=list(c(1,-3),2) draws two plots, log(TIC(sample3)-log(TIC(sample1) and log(TIC(sample2).

samplestodraw_LOGaltTIC

analogously to the previous argument, list of samples whose TIC chromatogram needs to be drawed logarithmically. The only diference is the TIC ploted is the altered one, a TIC without specific masses (see precook_measures() function).

sharerange

Which intensity range will share all the plots TRUE(default)<- The shared range will be contained between the maximum and minimum value of all plots FALSE<- each plot has its own (auto)range c(a, b)<- all plots will have the range [a,b] (e.g. c(0, 1000))

Value

Different chromatograms are drawn in the viewer tab. Moreover the parameters used for preprocessing the data (through precook_measures()) are printed on screen as remembrance.

Examples

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draw_TICmap(cdf_folder="C:/esborrar_mesuresGcxGc/mesures_Berkely_Noelia",samplestodraw_TIC = list(1,2), samplestodraw_LOGTIC = list(c(-1,2)), sharerange = FALSE)

jmbadia/GcxGctools documentation built on May 11, 2018, 7:47 p.m.