ser.dil.samples: Reverse phase protein array rawdata, samples serially diluted

In RPPanalyzer: Reads, Annotates, and Normalizes Reverse Phase Protein Array Data

Description

The data Set is a list of four elements. Expression and background are matrices containing signal intensities, the data frames arraydescription and sampledescription comprising feature and phenodata.

Usage

data(ser.dil.samples)

Format

list

Details

The data set is a subset of the data set dataI to shorten the running time during the R CMD check process. The data set contains information about the localization of the samples.

Source

The data set contains original reverse phase protein array signals with randomized pheno and feature data.

Examples

data(ser.dil.samples)
str(ser.dil.samples)

Example output

List of 5
 $ expression       : int [1:2304, 1:6] 10167 2952 1583 23117 23284 11577 7466 1898 1519 20926 ...
  ..- attr(*, "dimnames")=List of 2
  .. ..$ : chr [1:2304] "1E3" "1A5" "1G5" "1C1" ...
  .. ..$ : chr [1:6] "1-1-1-1" "2-1-1-1" "1-2-1-1" "2-2-1-1" ...
 $ background       : int [1:2304, 1:6] 822 730 750 1421 1658 1408 1069 778 861 1362 ...
  ..- attr(*, "dimnames")=List of 2
  .. ..$ : chr [1:2304] "1E3" "1A5" "1G5" "1C1" ...
  .. ..$ : chr [1:6] "1-1-1-1" "2-1-1-1" "1-2-1-1" "2-2-1-1" ...
 $ arraydescription : chr [1:9, 1:6] "S1.gpr" "1" "1" "1" ...
  ..- attr(*, "dimnames")=List of 2
  .. ..$ : chr [1:9] "gpr" "pad" "slide" "spotting_run" ...
  .. ..$ : chr [1:6] "1-1-1-1" "2-1-1-1" "1-2-1-1" "2-2-1-1" ...
 $ sampledescription:'data.frame':	2304 obs. of  9 variables:
  ..$ ID           : Factor w/ 384 levels "1A1","1A10","1A11",..: 114 20 164 49 97 18 162 68 116 1 ...
  ..$ sample_type  : Factor w/ 1 level "measurement": 1 1 1 1 1 1 1 1 1 1 ...
  ..$ sample       : Factor w/ 32 levels "lysate_i","lysate_ii",..: 15 3 8 1 15 3 8 1 15 3 ...
  ..$ sample.n     : int [1:2304] 1 1 1 1 1 1 1 1 1 1 ...
  ..$ concentration: num [1:2304] 0.715 0.273 0.145 3.532 2.861 ...
  ..$ dilution     : num [1:2304] 0.25 0.0625 0.0625 1 1 0.25 0.25 0.0625 0.0625 1 ...
  ..$ Block        : int [1:2304] 1 1 1 1 1 1 1 1 1 1 ...
  ..$ Column       : int [1:2304] 1 2 3 4 5 6 7 8 9 10 ...
  ..$ Row          : int [1:2304] 1 1 1 1 1 1 1 1 1 1 ...
 $ Flags            : int [1:2304, 1:6] 0 0 0 0 0 0 0 0 0 0 ...
  ..- attr(*, "dimnames")=List of 2
  .. ..$ : chr [1:2304] "1E3" "1A5" "1G5" "1C1" ...
  .. ..$ : chr [1:6] "1-1-1-1" "2-1-1-1" "1-2-1-1" "2-2-1-1" ...

RPPanalyzer documentation built on May 2, 2019, 6:10 p.m.