generate_queue: FGCZ mass spec queue generator
In fgcz/bfabricShiny: A Module for Bridging B-Fabric and R using REST

generate_queue

R Documentation

FGCZ mass spec queue generator

Description

FGCZ mass spec queue generator

Usage

generate_queue(
  x,
  foldername = "",
  projectid = 1000,
  area = "Proteomics",
  instrument = "LUMOS_2",
  username = "cpanse",
  autoQC01 = "TRUE",
  QC01o = 3,
  QC01m = 1,
  autoQC02 = "FALSE",
  QC02o = 0,
  QC02m = 1,
  autoQC4L = "FALSE",
  QC4Lo = 4,
  QC4Lm = 1,
  clean = "TRUE",
  cleano = 4,
  cleanm = 1,
  start1 = 1,
  start2 = NA,
  start3 = NA,
  end1 = 1,
  end2 = NA,
  end3 = NA,
  lists = 1,
  startposition = 1,
  nr.methods = 2,
  nr.replicates = 3,
  qc.type = 1,
  method = "default",
  pathprefix = "D:\\Data2San",
  pathprefixsep = "\\",
  acquisitionType = "DDA",
  DEBUG = FALSE,
  order = TRUE,
  startpos = list(row = 1, col = "A", plate = 1)
)

Arguments

`x`	x
`foldername`	forder name
`projectid`	foldername
`area`	Proteomics or Metabolomics
`instrument`	LTQFT_1
`username`	cpanse
`nr.methods`	1
`nr.replicates`	1
`qc.type`	TODO
`method`	random
`pathprefix`	D:Data2San
`pathprefixsep`	'/'
`how.often`	1
`how.many`	1
`showcondition`	TODO
`hplc`	TODO

Value

a instrument configuration as data.frame.

Examples

generate_queue(x <- bfabricShiny:::.test_data_medium(),start2 = NA,start3 = NA)
generate_queue(x <- bfabricShiny:::.test_data_medium(),
   projectid = 3000,
   area = "Proteomics",
   instrument = "QEXACTIVE_2",
   username = "roschi",
   autoQC01 = "TRUE",
   QC01o = 4,
   QC01m = 1,
   autoQC02 = "FALSE",
   QC02o = 4,
   QC02m = 1,
   autoQC4L = "FALSE",
   QC4Lo = 4,
   QC4Lm = 1,
   clean = "FALSE",
   cleano = 4,
   cleanm = 1,
   start1 = 1,
   start2 = NA,
   start3 = NA,
   end1 = 4,
   end2 = 1,
   end3 = 3,
   lists = 1,
   startposition = 1,
   nr.methods = 1,
   nr.replicates = 1,
   qc.type = 1,
   method = "default",
   pathprefix = "D:Data2San")
generate_queue(bfabricShiny:::.test_data_single() , order=TRUE, startpos = list(row=3, col="A", plate=2))
generate_queue(bfabricShiny:::.test_data_medium() , order=FALSE)
generate_queue(bfabricShiny:::.test_data_single())
generate_queue(bfabricShiny:::.test_data_large())
generate_queue(bfabricShiny:::.test_data_medium_random())

generate_queue(bfabricShiny:::.test_data_medium_random(), method = "default")
generate_queue(bfabricShiny:::.test_data_medium_random(), method = "random")
## Not run: 

generate_queue(bfabricShiny:::.test_data_medium(), method = "blockrandom")

## End(Not run)
bfabricShiny:::.test_data_medium()
generate_queue(bfabricShiny:::.test_data_medium())

fgcz/bfabricShiny documentation built on Dec. 25, 2024, 2:37 a.m.